HEADER OXIDOREDUCTASE 12-DEC-14 4UDY TITLE NCO- BOUND TO CLUSTER C OF NI,FE-CO DEHYDROGENASE AT TRUE-ATOMIC TITLE 2 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CARBON MONOXIDE DEHYDROGENASE 2; COMPND 3 CHAIN: X; COMPND 4 SYNONYM: CODH 2, NI, FE-CO DEHYDROGENASE; COMPND 5 EC: 1.2.99.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CARBOXYDOTHERMUS HYDROGENOFORMANS; SOURCE 3 ORGANISM_TAXID: 129958; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE, NCO, NI, FE, CODH EXPDTA X-RAY DIFFRACTION AUTHOR J.FESSELER,J.-H.JEOUNG,H.DOBBEK REVDAT 6 08-MAY-24 4UDY 1 REMARK LINK REVDAT 5 22-MAY-19 4UDY 1 REMARK REVDAT 4 05-JUL-17 4UDY 1 REMARK REVDAT 3 29-JUL-15 4UDY 1 JRNL REVDAT 2 27-MAY-15 4UDY 1 ATOM REVDAT 1 13-MAY-15 4UDY 0 JRNL AUTH J.FESSELER,J.H.JEOUNG,H.DOBBEK JRNL TITL HOW THE [NIFE4 S4 ] CLUSTER OF CO DEHYDROGENASE ACTIVATES JRNL TITL 2 CO2 AND NCO(.) JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 54 8560 2015 JRNL REFN ISSN 1433-7851 JRNL PMID 25926100 JRNL DOI 10.1002/ANIE.201501778 REMARK 2 REMARK 2 RESOLUTION. 1.09 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL 14 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.09 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.136 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.136 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.165 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.260 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 11175 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 212314 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.098 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.098 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.126 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.260 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 11175 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 212314 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4654 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 758 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 5408.3 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 4750.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 28 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 50098 REMARK 3 NUMBER OF RESTRAINTS : 62069 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 ANGLE DISTANCES (A) : 0.031 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.005 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.079 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.085 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.120 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.000 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.045 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.148 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4UDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1290062571. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XSCALE REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 223489 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.090 REMARK 200 RESOLUTION RANGE LOW (A) : 40.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.690 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.09 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.13 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.47 REMARK 200 R MERGE FOR SHELL (I) : 0.77000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 56.09150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.50400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 56.09150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 37.50400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -202.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: X REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 86.43062 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 66.32492 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH X2094 LIES ON A SPECIAL POSITION. REMARK 375 HOH X2347 LIES ON A SPECIAL POSITION. REMARK 375 HOH X2402 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET X 1 REMARK 465 ALA X 2 REMARK 465 LYS X 3 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HG SER X 271 O HOH X 2477 1.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU X 75 CD GLU X 75 OE1 0.073 REMARK 500 GLU X 75 CD GLU X 75 OE2 0.071 REMARK 500 SER X 94 CB SER X 94 OG -0.105 REMARK 500 CYS X 309 CB CYS X 309 SG -0.106 REMARK 500 SER X 599 CB SER X 599 OG -0.079 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG X 11 CD - NE - CZ ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG X 11 NH1 - CZ - NH2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG X 11 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG X 22 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 SER X 94 CB - CA - C ANGL. DEV. = -13.8 DEGREES REMARK 500 SER X 94 CA - CB - OG ANGL. DEV. = 29.4 DEGREES REMARK 500 HIS X 99 ND1 - CG - CD2 ANGL. DEV. = -9.7 DEGREES REMARK 500 HIS X 99 CG - ND1 - CE1 ANGL. DEV. = 12.2 DEGREES REMARK 500 HIS X 99 ND1 - CE1 - NE2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ARG X 120 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG X 129 CD - NE - CZ ANGL. DEV. = 11.7 DEGREES REMARK 500 PHE X 154 CZ - CE2 - CD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP X 252 CB - CG - OD1 ANGL. DEV. = 8.0 DEGREES REMARK 500 HIS X 261 CA - CB - CG ANGL. DEV. = -11.7 DEGREES REMARK 500 GLU X 275 CA - CB - CG ANGL. DEV. = 18.5 DEGREES REMARK 500 ARG X 281 NE - CZ - NH2 ANGL. DEV. = 4.7 DEGREES REMARK 500 HIS X 311 CG - ND1 - CE1 ANGL. DEV. = 7.0 DEGREES REMARK 500 GLY X 322 O - C - N ANGL. DEV. = -11.4 DEGREES REMARK 500 ASP X 330 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 CYS X 344 CA - CB - SG ANGL. DEV. = 8.4 DEGREES REMARK 500 HIS X 363 CG - ND1 - CE1 ANGL. DEV. = 11.2 DEGREES REMARK 500 HIS X 363 ND1 - CE1 - NE2 ANGL. DEV. = -8.6 DEGREES REMARK 500 HIS X 363 CE1 - NE2 - CD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 PHE X 366 CB - CG - CD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG X 388 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG X 389 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG X 462 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG X 462 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG X 483 CD - NE - CZ ANGL. DEV. = 14.1 DEGREES REMARK 500 ARG X 483 NE - CZ - NH1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ASP X 498 CB - CG - OD2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG X 549 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 HIS X 561 CG - ND1 - CE1 ANGL. DEV. = 7.5 DEGREES REMARK 500 TRP X 570 CA - CB - CG ANGL. DEV. = 12.8 DEGREES REMARK 500 HIS X 579 CG - ND1 - CE1 ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG X 628 CD - NE - CZ ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG X 628 NE - CZ - NH2 ANGL. DEV. = -5.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LEU X 46 54.79 -91.07 REMARK 500 ASP X 63 -163.34 -105.16 REMARK 500 ALA X 112 77.00 -156.89 REMARK 500 LYS X 157 -164.58 -163.70 REMARK 500 CYS X 201 -123.13 -114.65 REMARK 500 ALA X 203 46.37 -148.34 REMARK 500 THR X 242 -155.05 -153.25 REMARK 500 ASN X 245 173.36 96.13 REMARK 500 HIS X 261 -37.41 -136.74 REMARK 500 CYS X 294 -157.35 57.79 REMARK 500 CYS X 294 -141.74 64.12 REMARK 500 SER X 312 -123.30 47.00 REMARK 500 ASP X 330 -77.36 -112.95 REMARK 500 GLN X 332 131.67 78.79 REMARK 500 ASP X 454 -6.20 80.33 REMARK 500 GLU X 558 38.79 -141.67 REMARK 500 MET X 560 -59.20 -134.01 REMARK 500 SER X 598 -61.73 -143.48 REMARK 500 TYR X 607 148.95 -174.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 CYS X 446 ASN X 447 147.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH X2138 DISTANCE = 6.93 ANGSTROMS REMARK 525 HOH X2173 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH X2274 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH X2327 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH X2336 DISTANCE = 6.94 ANGSTROMS REMARK 525 HOH X2447 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH X2757 DISTANCE = 7.14 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES X1002 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 39 SG REMARK 620 2 FES X1002 S1 106.6 REMARK 620 3 FES X1002 S2 117.2 105.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES X1002 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 47 SG REMARK 620 2 FES X1002 S1 118.2 REMARK 620 3 FES X1002 S2 113.7 104.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 X1001 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 48 SG REMARK 620 2 SF4 X1001 S1 117.2 REMARK 620 3 SF4 X1001 S2 108.8 104.8 REMARK 620 4 SF4 X1001 S4 112.0 105.3 108.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 X1001 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 51 SG REMARK 620 2 SF4 X1001 S1 120.8 REMARK 620 3 SF4 X1001 S3 100.8 105.0 REMARK 620 4 SF4 X1001 S4 119.7 103.9 104.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 X1001 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 56 SG REMARK 620 2 SF4 X1001 S2 107.9 REMARK 620 3 SF4 X1001 S3 116.8 104.3 REMARK 620 4 SF4 X1001 S4 113.8 107.3 106.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 X1001 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 70 SG REMARK 620 2 SF4 X1001 S1 117.9 REMARK 620 3 SF4 X1001 S2 114.9 104.2 REMARK 620 4 SF4 X1001 S3 109.5 105.5 103.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 X1004 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS X 261 NE2 REMARK 620 2 WCC X1003 S3 98.2 REMARK 620 3 0NM X1005 O 86.7 143.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 X1004 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 295 SG REMARK 620 2 CYS X 526 SG 97.7 REMARK 620 3 WCC X1003 S3 98.9 160.6 REMARK 620 4 0NM X1005 O 91.4 86.0 103.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 WCC X1003 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 333 SG REMARK 620 2 WCC X1003 S2 115.6 REMARK 620 3 WCC X1003 S3 114.9 100.6 REMARK 620 4 WCC X1003 S4 97.8 108.8 119.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 WCC X1003 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 446 SG REMARK 620 2 WCC X1003 S1 121.8 REMARK 620 3 WCC X1003 S2 105.5 107.4 REMARK 620 4 WCC X1003 S4 107.6 101.6 113.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 WCC X1003 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 476 SG REMARK 620 2 WCC X1003 S1 108.6 REMARK 620 3 WCC X1003 S2 116.3 108.1 REMARK 620 4 WCC X1003 S3 109.5 113.6 100.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 WCC X1003 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS X 526 SG REMARK 620 2 WCC X1003 S1 90.4 REMARK 620 3 WCC X1003 S3 103.9 75.0 REMARK 620 4 WCC X1003 S4 167.3 102.3 80.1 REMARK 620 5 0NM X1005 O 88.2 149.2 75.4 81.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 X 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FES X 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE WCC X 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 X 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0NM X 1005 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4UDX RELATED DB: PDB REMARK 900 CO2 BOUND TO CLUSTER C OF NI,FE-CO DEHYDROGENASE AT TRUE-ATOMIC REMARK 900 RESOLUTION DBREF 4UDY X 1 636 UNP Q9F8A8 COOS2_CARHZ 1 636 SEQRES 1 X 636 MET ALA LYS GLN ASN LEU LYS SER THR ASP ARG ALA VAL SEQRES 2 X 636 GLN GLN MET LEU ASP LYS ALA LYS ARG GLU GLY ILE GLN SEQRES 3 X 636 THR VAL TRP ASP ARG TYR GLU ALA MET LYS PRO GLN CYS SEQRES 4 X 636 GLY PHE GLY GLU THR GLY LEU CYS CYS ARG HIS CYS LEU SEQRES 5 X 636 GLN GLY PRO CYS ARG ILE ASN PRO PHE GLY ASP GLU PRO SEQRES 6 X 636 LYS VAL GLY ILE CYS GLY ALA THR ALA GLU VAL ILE VAL SEQRES 7 X 636 ALA ARG GLY LEU ASP ARG SER ILE ALA ALA GLY ALA ALA SEQRES 8 X 636 GLY HIS SER GLY HIS ALA LYS HIS LEU ALA HIS THR LEU SEQRES 9 X 636 LYS LYS ALA VAL GLN GLY LYS ALA ALA SER TYR MET ILE SEQRES 10 X 636 LYS ASP ARG THR LYS LEU HIS SER ILE ALA LYS ARG LEU SEQRES 11 X 636 GLY ILE PRO THR GLU GLY GLN LYS ASP GLU ASP ILE ALA SEQRES 12 X 636 LEU GLU VAL ALA LYS ALA ALA LEU ALA ASP PHE HIS GLU SEQRES 13 X 636 LYS ASP THR PRO VAL LEU TRP VAL THR THR VAL LEU PRO SEQRES 14 X 636 PRO SER ARG VAL LYS VAL LEU SER ALA HIS GLY LEU ILE SEQRES 15 X 636 PRO ALA GLY ILE ASP HIS GLU ILE ALA GLU ILE MET HIS SEQRES 16 X 636 ARG THR SER MET GLY CYS ASP ALA ASP ALA GLN ASN LEU SEQRES 17 X 636 LEU LEU GLY GLY LEU ARG CYS SER LEU ALA ASP LEU ALA SEQRES 18 X 636 GLY CYS TYR MET GLY THR ASP LEU ALA ASP ILE LEU PHE SEQRES 19 X 636 GLY THR PRO ALA PRO VAL VAL THR GLU SER ASN LEU GLY SEQRES 20 X 636 VAL LEU LYS ALA ASP ALA VAL ASN VAL ALA VAL HIS GLY SEQRES 21 X 636 HIS ASN PRO VAL LEU SER ASP ILE ILE VAL SER VAL SER SEQRES 22 X 636 LYS GLU MET GLU ASN GLU ALA ARG ALA ALA GLY ALA THR SEQRES 23 X 636 GLY ILE ASN VAL VAL GLY ILE CYS CYS THR GLY ASN GLU SEQRES 24 X 636 VAL LEU MET ARG HIS GLY ILE PRO ALA CYS THR HIS SER SEQRES 25 X 636 VAL SER GLN GLU MET ALA MET ILE THR GLY ALA LEU ASP SEQRES 26 X 636 ALA MET ILE LEU ASP TYR GLN CYS ILE GLN PRO SER VAL SEQRES 27 X 636 ALA THR ILE ALA GLU CYS THR GLY THR THR VAL ILE THR SEQRES 28 X 636 THR MET GLU MET SER LYS ILE THR GLY ALA THR HIS VAL SEQRES 29 X 636 ASN PHE ALA GLU GLU ALA ALA VAL GLU ASN ALA LYS GLN SEQRES 30 X 636 ILE LEU ARG LEU ALA ILE ASP THR PHE LYS ARG ARG LYS SEQRES 31 X 636 GLY LYS PRO VAL GLU ILE PRO ASN ILE LYS THR LYS VAL SEQRES 32 X 636 VAL ALA GLY PHE SER THR GLU ALA ILE ILE ASN ALA LEU SEQRES 33 X 636 SER LYS LEU ASN ALA ASN ASP PRO LEU LYS PRO LEU ILE SEQRES 34 X 636 ASP ASN VAL VAL ASN GLY ASN ILE ARG GLY VAL CYS LEU SEQRES 35 X 636 PHE ALA GLY CYS ASN ASN VAL LYS VAL PRO GLN ASP GLN SEQRES 36 X 636 ASN PHE THR THR ILE ALA ARG LYS LEU LEU LYS GLN ASN SEQRES 37 X 636 VAL LEU VAL VAL ALA THR GLY CYS GLY ALA GLY ALA LEU SEQRES 38 X 636 MET ARG HIS GLY PHE MET ASP PRO ALA ASN VAL ASP GLU SEQRES 39 X 636 LEU CYS GLY ASP GLY LEU LYS ALA VAL LEU THR ALA ILE SEQRES 40 X 636 GLY GLU ALA ASN GLY LEU GLY GLY PRO LEU PRO PRO VAL SEQRES 41 X 636 LEU HIS MET GLY SER CYS VAL ASP ASN SER ARG ALA VAL SEQRES 42 X 636 ALA LEU VAL ALA ALA LEU ALA ASN ARG LEU GLY VAL ASP SEQRES 43 X 636 LEU ASP ARG LEU PRO VAL VAL ALA SER ALA ALA GLU ALA SEQRES 44 X 636 MET HIS GLU LYS ALA VAL ALA ILE GLY THR TRP ALA VAL SEQRES 45 X 636 THR ILE GLY LEU PRO THR HIS ILE GLY VAL LEU PRO PRO SEQRES 46 X 636 ILE THR GLY SER LEU PRO VAL THR GLN ILE LEU THR SER SEQRES 47 X 636 SER VAL LYS ASP ILE THR GLY GLY TYR PHE ILE VAL GLU SEQRES 48 X 636 LEU ASP PRO GLU THR ALA ALA ASP LYS LEU LEU ALA ALA SEQRES 49 X 636 ILE ASN GLU ARG ARG ALA GLY LEU GLY LEU PRO TRP HET SF4 X1001 8 HET FES X1002 4 HET WCC X1003 8 HET FE2 X1004 2 HET 0NM X1005 3 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM FES FE2/S2 (INORGANIC) CLUSTER HETNAM WCC FE(3)-NI(1)-S(4) CLUSTER HETNAM FE2 FE (II) ION HETNAM 0NM CYANIC ACID HETSYN WCC C CLUSTER CUBANE FORMUL 2 SF4 FE4 S4 FORMUL 3 FES FE2 S2 FORMUL 4 WCC FE3 NI S4 FORMUL 5 FE2 FE 2+ FORMUL 6 0NM C H N O FORMUL 7 HOH *758(H2 O) HELIX 1 1 ASP X 10 GLY X 24 1 15 HELIX 2 2 THR X 27 LYS X 36 1 10 HELIX 3 3 CYS X 39 GLY X 45 1 7 HELIX 4 4 THR X 73 GLN X 109 1 37 HELIX 5 5 ASP X 119 GLY X 131 1 13 HELIX 6 6 LYS X 138 ASP X 153 1 16 HELIX 7 7 VAL X 161 THR X 166 1 6 HELIX 8 8 PRO X 169 HIS X 179 1 11 HELIX 9 9 GLY X 185 THR X 197 1 13 HELIX 10 10 ASP X 204 GLY X 235 1 32 HELIX 11 11 ASN X 245 LEU X 249 5 5 HELIX 12 12 ASN X 262 MET X 276 1 15 HELIX 13 13 MET X 276 ALA X 283 1 8 HELIX 14 14 CYS X 294 GLY X 305 1 12 HELIX 15 15 HIS X 311 SER X 314 5 4 HELIX 16 16 GLN X 315 THR X 321 1 7 HELIX 17 17 SER X 337 GLY X 346 1 10 HELIX 18 18 ALA X 367 GLU X 369 5 3 HELIX 19 19 ALA X 370 ARG X 389 1 20 HELIX 20 20 SER X 408 LYS X 418 1 11 HELIX 21 21 PRO X 424 ASN X 434 1 11 HELIX 22 22 ASP X 454 GLN X 467 1 14 HELIX 23 23 GLY X 475 HIS X 484 1 10 HELIX 24 24 ASP X 488 ALA X 490 5 3 HELIX 25 25 ASN X 491 CYS X 496 1 6 HELIX 26 26 GLY X 497 ASN X 511 1 15 HELIX 27 27 ASP X 528 GLY X 544 1 17 HELIX 28 28 ASP X 546 LEU X 550 5 5 HELIX 29 29 HIS X 561 GLY X 575 1 15 HELIX 30 30 SER X 589 SER X 598 1 10 HELIX 31 31 VAL X 600 GLY X 605 1 6 HELIX 32 32 ASP X 613 LEU X 632 1 20 SHEET 1 XA 2 CYS X 47 CYS X 48 0 SHEET 2 XA 2 CYS X 56 ARG X 57 -1 O CYS X 56 N CYS X 48 SHEET 1 XB 2 VAL X 240 SER X 244 0 SHEET 2 XB 2 THR X 401 ALA X 405 -1 O THR X 401 N SER X 244 SHEET 1 XC 6 ALA X 308 THR X 310 0 SHEET 2 XC 6 ILE X 288 ILE X 293 1 O GLY X 292 N CYS X 309 SHEET 3 XC 6 VAL X 254 HIS X 259 1 O VAL X 254 N ASN X 289 SHEET 4 XC 6 LEU X 324 LEU X 329 1 N ASP X 325 O ASN X 255 SHEET 5 XC 6 THR X 348 THR X 351 1 O THR X 348 N MET X 327 SHEET 6 XC 6 THR X 362 HIS X 363 1 O THR X 362 N THR X 351 SHEET 1 XD 6 VAL X 520 GLY X 524 0 SHEET 2 XD 6 LEU X 470 THR X 474 1 O VAL X 471 N LEU X 521 SHEET 3 XD 6 VAL X 440 PHE X 443 1 O CYS X 441 N VAL X 472 SHEET 4 XD 6 VAL X 552 ALA X 556 1 O VAL X 553 N LEU X 442 SHEET 5 XD 6 PRO X 577 ILE X 580 1 O PRO X 577 N ALA X 554 SHEET 6 XD 6 TYR X 607 VAL X 610 1 O TYR X 607 N THR X 578 LINK SG CYS X 39 FE1 FES X1002 1555 1555 2.29 LINK SG CYS X 47 FE2 FES X1002 1555 1555 2.26 LINK SG CYS X 48 FE3 SF4 X1001 1555 1555 2.29 LINK SG CYS X 51 FE2 SF4 X1001 1555 1555 2.28 LINK SG CYS X 56 FE1 SF4 X1001 1555 1555 2.32 LINK SG CYS X 70 FE4 SF4 X1001 1555 1555 2.32 LINK NE2 HIS X 261 FE BFE2 X1004 1555 1555 2.16 LINK SG ACYS X 295 FE AFE2 X1004 1555 1555 2.19 LINK SG CYS X 333 FE1 WCC X1003 1555 1555 2.23 LINK SG CYS X 446 FE3 WCC X1003 1555 1555 2.37 LINK SG CYS X 476 FE4 WCC X1003 1555 1555 2.33 LINK SG CYS X 526 NI WCC X1003 1555 1555 2.10 LINK SG CYS X 526 FE AFE2 X1004 1555 1555 2.30 LINK S3 WCC X1003 FE AFE2 X1004 1555 1555 2.52 LINK S3 WCC X1003 FE BFE2 X1004 1555 1555 2.26 LINK NI WCC X1003 O 0NM X1005 1555 1555 2.75 LINK FE AFE2 X1004 O 0NM X1005 1555 1555 2.68 LINK FE BFE2 X1004 O 0NM X1005 1555 1555 2.04 CISPEP 1 LYS X 36 PRO X 37 0 -5.21 CISPEP 2 GLY X 54 PRO X 55 0 7.47 CISPEP 3 GLU X 64 PRO X 65 0 3.39 CISPEP 4 GLU X 64 PRO X 65 0 0.61 SITE 1 AC1 7 CYS X 48 CYS X 51 GLY X 54 CYS X 56 SITE 2 AC1 7 CYS X 70 ARG X 80 MET X 199 SITE 1 AC2 3 CYS X 39 GLY X 42 CYS X 47 SITE 1 AC3 14 HIS X 261 CYS X 294 CYS X 295 SER X 312 SITE 2 AC3 14 CYS X 333 GLY X 445 CYS X 446 CYS X 476 SITE 3 AC3 14 CYS X 526 MET X 560 LYS X 563 FE2 X1004 SITE 4 AC3 14 0NM X1005 HOH X2677 SITE 1 AC4 5 HIS X 261 CYS X 295 CYS X 526 WCC X1003 SITE 2 AC4 5 0NM X1005 SITE 1 AC5 9 HIS X 93 HIS X 261 CYS X 295 CYS X 526 SITE 2 AC5 9 LYS X 563 WCC X1003 FE2 X1004 HOH X2242 SITE 3 AC5 9 HOH X2677 CRYST1 112.183 75.008 71.149 90.00 111.22 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008914 0.000000 0.003461 0.00000 SCALE2 0.000000 0.013332 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015077 0.00000