HEADER LIGASE 17-JAN-13 4ISZ TITLE RNA LIGASE RTCB IN COMPLEX WITH GTP ALPHAS AND MN(II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA-SPLICING LIGASE RTCB; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PHO HYP2 INTEIN; COMPND 5 EC: 6.5.1.-, 3.1.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 70601; SOURCE 4 STRAIN: ATCC 700860; SOURCE 5 GENE: PH1602, RTCB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE70 KEYWDS RNA LIGASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR K.K.DESAI,C.A.BINGMAN,G.N.PHILLIPS JR.,R.T.RAINES REVDAT 5 28-FEB-24 4ISZ 1 HETSYN REVDAT 4 29-JUL-20 4ISZ 1 COMPND REMARK HET HETNAM REVDAT 4 2 1 FORMUL LINK SITE ATOM REVDAT 3 09-AUG-17 4ISZ 1 SOURCE REVDAT 2 01-MAY-13 4ISZ 1 JRNL REVDAT 1 10-APR-13 4ISZ 0 JRNL AUTH K.K.DESAI,C.A.BINGMAN,G.N.PHILLIPS,R.T.RAINES JRNL TITL STRUCTURES OF THE NONCANONICAL RNA LIGASE RTCB REVEAL THE JRNL TITL 2 MECHANISM OF HISTIDINE GUANYLYLATION. JRNL REF BIOCHEMISTRY V. 52 2518 2013 JRNL REFN ISSN 0006-2960 JRNL PMID 23560983 JRNL DOI 10.1021/BI4002375 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 73420 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2241 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.7596 - 5.8011 0.99 4829 135 0.1792 0.1644 REMARK 3 2 5.8011 - 4.6055 1.00 4640 178 0.1389 0.1860 REMARK 3 3 4.6055 - 4.0236 1.00 4630 120 0.1221 0.1491 REMARK 3 4 4.0236 - 3.6559 1.00 4567 157 0.1365 0.1878 REMARK 3 5 3.6559 - 3.3939 1.00 4575 143 0.1541 0.1969 REMARK 3 6 3.3939 - 3.1938 1.00 4575 144 0.1704 0.2275 REMARK 3 7 3.1938 - 3.0339 1.00 4535 139 0.1765 0.2456 REMARK 3 8 3.0339 - 2.9019 1.00 4552 137 0.1755 0.2428 REMARK 3 9 2.9019 - 2.7902 1.00 4513 147 0.1754 0.2141 REMARK 3 10 2.7902 - 2.6939 1.00 4500 147 0.1859 0.2498 REMARK 3 11 2.6939 - 2.6097 1.00 4527 142 0.1883 0.2783 REMARK 3 12 2.6097 - 2.5351 1.00 4494 144 0.2027 0.2271 REMARK 3 13 2.5351 - 2.4683 0.99 4514 130 0.2153 0.2758 REMARK 3 14 2.4683 - 2.4081 0.97 4373 147 0.2306 0.2714 REMARK 3 15 2.4081 - 2.3534 0.91 4108 136 0.2488 0.2911 REMARK 3 16 2.3534 - 2.3033 0.72 3247 95 0.2616 0.2735 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.017 7928 REMARK 3 ANGLE : 1.623 10745 REMARK 3 CHIRALITY : 0.168 1142 REMARK 3 PLANARITY : 0.007 1374 REMARK 3 DIHEDRAL : 16.471 2965 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4ISZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000077170. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : DIAMOND (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73420 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.14900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN FROM ONE PART RTCB REMARK 280 SOLUTION AT 200 MICROMOLAR, 1MM MNCL2, 1MM GTPALPHAS, MIXED WITH REMARK 280 ONE PART RESERVOIR SOLUTION, 2.1 M AMMONIUM SULFATE, 0.1 M REMARK 280 BISTRIS BUFFER. CRYSTALS WERE CRYOPROTECTED IN RESERVOIR REMARK 280 SOLUTION SUPPLEMENTED WITH 20% SUCROSE, 1MM MNCL2 AND 1 MM REMARK 280 GTPALPHAS , PH 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 40.55400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 74.73450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 69.45600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 74.73450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.55400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 69.45600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, D 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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 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 A 1 REMARK 465 MET B 1 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 H SER B 380 OG1 THR B 383 1.46 REMARK 500 HH22 ARG A 408 O GLU A 445 1.48 REMARK 500 HZ3 LYS A 452 O HOH A 743 1.59 REMARK 500 O HOH A 739 O HOH A 761 1.79 REMARK 500 O HOH B 653 O HOH B 772 1.93 REMARK 500 S1A GAV A 501 O HOH A 697 2.02 REMARK 500 O GLY B 379 C1' GAV B 501 2.02 REMARK 500 O HOH B 638 O HOH B 673 2.04 REMARK 500 OD1 ASN B 202 OH TYR B 451 2.07 REMARK 500 OH TYR B 386 OD1 ASP B 455 2.10 REMARK 500 OG SER B 200 OXT GLY B 481 2.13 REMARK 500 O HOH A 656 O HOH A 683 2.17 REMARK 500 O HOH A 729 O HOH A 797 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU A 84 NE ARG B 257 1455 2.19 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 THR B 235 CB - CA - C ANGL. DEV. = -17.9 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 ASP A 9 -166.23 -162.09 REMARK 500 ASP A 41 -155.27 -99.89 REMARK 500 LYS A 58 -70.98 67.69 REMARK 500 TRP A 141 9.77 -56.17 REMARK 500 GLU A 171 17.34 59.46 REMARK 500 SER A 200 -144.77 -135.04 REMARK 500 ARG A 238 -152.35 57.15 REMARK 500 LEU A 268 49.80 -94.18 REMARK 500 GLU A 316 -71.36 -80.08 REMARK 500 HIS A 329 17.26 -141.27 REMARK 500 MET A 381 -38.94 -24.51 REMARK 500 SER A 439 -166.53 -125.03 REMARK 500 ASP B 41 -158.77 -102.72 REMARK 500 LYS B 58 -69.47 75.01 REMARK 500 ILE B 137 139.71 94.67 REMARK 500 TRP B 141 4.04 -59.13 REMARK 500 GLU B 171 13.29 59.24 REMARK 500 GLN B 185 -58.18 -28.12 REMARK 500 SER B 200 -156.97 -141.88 REMARK 500 ARG B 238 -141.17 58.18 REMARK 500 ALA B 255 34.29 -83.24 REMARK 500 GLU B 316 -75.27 -87.26 REMARK 500 ALA B 356 56.04 -143.02 REMARK 500 MET B 381 113.24 -39.61 REMARK 500 ALA B 384 134.23 116.46 REMARK 500 VAL B 409 -41.27 -143.71 REMARK 500 REMARK 500 REMARK: NULL 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 MN A 503 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD2 REMARK 620 2 CYS A 98 SG 101.0 REMARK 620 3 HIS A 203 NE2 88.3 89.6 REMARK 620 4 GAV A 501 O3B 154.2 92.7 113.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 502 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 98 SG REMARK 620 2 HIS A 234 NE2 94.5 REMARK 620 3 HIS A 329 NE2 110.5 91.6 REMARK 620 4 GAV A 501 O2A 157.3 101.6 85.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 503 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 95 OD2 REMARK 620 2 CYS B 98 SG 102.9 REMARK 620 3 HIS B 203 NE2 94.0 90.2 REMARK 620 4 GAV B 501 O1G 102.5 132.5 126.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 502 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 98 SG REMARK 620 2 HIS B 234 NE2 101.1 REMARK 620 3 HIS B 329 NE2 118.2 105.5 REMARK 620 4 GAV B 501 O2A 155.5 96.2 72.6 REMARK 620 5 GAV B 501 O3B 92.7 119.2 118.9 63.6 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ISJ RELATED DB: PDB REMARK 900 RELATED ID: 4IT0 RELATED DB: PDB DBREF 4ISZ A 1 97 UNP O59245 RTCB_PYRHO 1 97 DBREF 4ISZ A 98 481 UNP O59245 RTCB_PYRHO 488 871 DBREF 4ISZ B 1 97 UNP O59245 RTCB_PYRHO 1 97 DBREF 4ISZ B 98 481 UNP O59245 RTCB_PYRHO 488 871 SEQRES 1 A 481 MET VAL VAL PRO LEU LYS ARG ILE ASP LYS ILE ARG TRP SEQRES 2 A 481 GLU ILE PRO LYS PHE ASP LYS ARG MET ARG VAL PRO GLY SEQRES 3 A 481 ARG VAL TYR ALA ASP GLU VAL LEU LEU GLU LYS MET LYS SEQRES 4 A 481 ASN ASP ARG THR LEU GLU GLN ALA THR ASN VAL ALA MET SEQRES 5 A 481 LEU PRO GLY ILE TYR LYS TYR SER ILE VAL MET PRO ASP SEQRES 6 A 481 GLY HIS GLN GLY TYR GLY PHE PRO ILE GLY GLY VAL ALA SEQRES 7 A 481 ALA PHE ASP VAL LYS GLU GLY VAL ILE SER PRO GLY GLY SEQRES 8 A 481 ILE GLY TYR ASP ILE ASN CYS GLY VAL ARG LEU ILE ARG SEQRES 9 A 481 THR ASN LEU THR GLU LYS GLU VAL ARG PRO ARG ILE LYS SEQRES 10 A 481 GLN LEU VAL ASP THR LEU PHE LYS ASN VAL PRO SER GLY SEQRES 11 A 481 VAL GLY SER GLN GLY ARG ILE LYS LEU HIS TRP THR GLN SEQRES 12 A 481 ILE ASP ASP VAL LEU VAL ASP GLY ALA LYS TRP ALA VAL SEQRES 13 A 481 ASP ASN GLY TYR GLY TRP GLU ARG ASP LEU GLU ARG LEU SEQRES 14 A 481 GLU GLU GLY GLY ARG MET GLU GLY ALA ASP PRO GLU ALA SEQRES 15 A 481 VAL SER GLN ARG ALA LYS GLN ARG GLY ALA PRO GLN LEU SEQRES 16 A 481 GLY SER LEU GLY SER GLY ASN HIS PHE LEU GLU VAL GLN SEQRES 17 A 481 VAL VAL ASP LYS ILE PHE ASP PRO GLU VAL ALA LYS ALA SEQRES 18 A 481 TYR GLY LEU PHE GLU GLY GLN VAL VAL VAL MET VAL HIS SEQRES 19 A 481 THR GLY SER ARG GLY LEU GLY HIS GLN VAL ALA SER ASP SEQRES 20 A 481 TYR LEU ARG ILE MET GLU ARG ALA ILE ARG LYS TYR ARG SEQRES 21 A 481 ILE PRO TRP PRO ASP ARG GLU LEU VAL SER VAL PRO PHE SEQRES 22 A 481 GLN SER GLU GLU GLY GLN ARG TYR PHE SER ALA MET LYS SEQRES 23 A 481 ALA ALA ALA ASN PHE ALA TRP ALA ASN ARG GLN MET ILE SEQRES 24 A 481 THR HIS TRP VAL ARG GLU SER PHE GLN GLU VAL PHE LYS SEQRES 25 A 481 GLN ASP PRO GLU GLY ASP LEU GLY MET ASP ILE VAL TYR SEQRES 26 A 481 ASP VAL ALA HIS ASN ILE GLY LYS VAL GLU GLU HIS GLU SEQRES 27 A 481 VAL ASP GLY LYS ARG VAL LYS VAL ILE VAL HIS ARG LYS SEQRES 28 A 481 GLY ALA THR ARG ALA PHE PRO PRO GLY HIS GLU ALA VAL SEQRES 29 A 481 PRO ARG LEU TYR ARG ASP VAL GLY GLN PRO VAL LEU ILE SEQRES 30 A 481 PRO GLY SER MET GLY THR ALA SER TYR ILE LEU ALA GLY SEQRES 31 A 481 THR GLU GLY ALA MET LYS GLU THR PHE GLY SER THR CYS SEQRES 32 A 481 HIS GLY ALA GLY ARG VAL LEU SER ARG LYS ALA ALA THR SEQRES 33 A 481 ARG GLN TYR ARG GLY ASP ARG ILE ARG GLN GLU LEU LEU SEQRES 34 A 481 ASN ARG GLY ILE TYR VAL ARG ALA ALA SER MET ARG VAL SEQRES 35 A 481 VAL ALA GLU GLU ALA PRO GLY ALA TYR LYS ASN VAL ASP SEQRES 36 A 481 ASN VAL VAL LYS VAL VAL SER GLU ALA GLY ILE ALA LYS SEQRES 37 A 481 LEU VAL ALA ARG MET ARG PRO ILE GLY VAL ALA LYS GLY SEQRES 1 B 481 MET VAL VAL PRO LEU LYS ARG ILE ASP LYS ILE ARG TRP SEQRES 2 B 481 GLU ILE PRO LYS PHE ASP LYS ARG MET ARG VAL PRO GLY SEQRES 3 B 481 ARG VAL TYR ALA ASP GLU VAL LEU LEU GLU LYS MET LYS SEQRES 4 B 481 ASN ASP ARG THR LEU GLU GLN ALA THR ASN VAL ALA MET SEQRES 5 B 481 LEU PRO GLY ILE TYR LYS TYR SER ILE VAL MET PRO ASP SEQRES 6 B 481 GLY HIS GLN GLY TYR GLY PHE PRO ILE GLY GLY VAL ALA SEQRES 7 B 481 ALA PHE ASP VAL LYS GLU GLY VAL ILE SER PRO GLY GLY SEQRES 8 B 481 ILE GLY TYR ASP ILE ASN CYS GLY VAL ARG LEU ILE ARG SEQRES 9 B 481 THR ASN LEU THR GLU LYS GLU VAL ARG PRO ARG ILE LYS SEQRES 10 B 481 GLN LEU VAL ASP THR LEU PHE LYS ASN VAL PRO SER GLY SEQRES 11 B 481 VAL GLY SER GLN GLY ARG ILE LYS LEU HIS TRP THR GLN SEQRES 12 B 481 ILE ASP ASP VAL LEU VAL ASP GLY ALA LYS TRP ALA VAL SEQRES 13 B 481 ASP ASN GLY TYR GLY TRP GLU ARG ASP LEU GLU ARG LEU SEQRES 14 B 481 GLU GLU GLY GLY ARG MET GLU GLY ALA ASP PRO GLU ALA SEQRES 15 B 481 VAL SER GLN ARG ALA LYS GLN ARG GLY ALA PRO GLN LEU SEQRES 16 B 481 GLY SER LEU GLY SER GLY ASN HIS PHE LEU GLU VAL GLN SEQRES 17 B 481 VAL VAL ASP LYS ILE PHE ASP PRO GLU VAL ALA LYS ALA SEQRES 18 B 481 TYR GLY LEU PHE GLU GLY GLN VAL VAL VAL MET VAL HIS SEQRES 19 B 481 THR GLY SER ARG GLY LEU GLY HIS GLN VAL ALA SER ASP SEQRES 20 B 481 TYR LEU ARG ILE MET GLU ARG ALA ILE ARG LYS TYR ARG SEQRES 21 B 481 ILE PRO TRP PRO ASP ARG GLU LEU VAL SER VAL PRO PHE SEQRES 22 B 481 GLN SER GLU GLU GLY GLN ARG TYR PHE SER ALA MET LYS SEQRES 23 B 481 ALA ALA ALA ASN PHE ALA TRP ALA ASN ARG GLN MET ILE SEQRES 24 B 481 THR HIS TRP VAL ARG GLU SER PHE GLN GLU VAL PHE LYS SEQRES 25 B 481 GLN ASP PRO GLU GLY ASP LEU GLY MET ASP ILE VAL TYR SEQRES 26 B 481 ASP VAL ALA HIS ASN ILE GLY LYS VAL GLU GLU HIS GLU SEQRES 27 B 481 VAL ASP GLY LYS ARG VAL LYS VAL ILE VAL HIS ARG LYS SEQRES 28 B 481 GLY ALA THR ARG ALA PHE PRO PRO GLY HIS GLU ALA VAL SEQRES 29 B 481 PRO ARG LEU TYR ARG ASP VAL GLY GLN PRO VAL LEU ILE SEQRES 30 B 481 PRO GLY SER MET GLY THR ALA SER TYR ILE LEU ALA GLY SEQRES 31 B 481 THR GLU GLY ALA MET LYS GLU THR PHE GLY SER THR CYS SEQRES 32 B 481 HIS GLY ALA GLY ARG VAL LEU SER ARG LYS ALA ALA THR SEQRES 33 B 481 ARG GLN TYR ARG GLY ASP ARG ILE ARG GLN GLU LEU LEU SEQRES 34 B 481 ASN ARG GLY ILE TYR VAL ARG ALA ALA SER MET ARG VAL SEQRES 35 B 481 VAL ALA GLU GLU ALA PRO GLY ALA TYR LYS ASN VAL ASP SEQRES 36 B 481 ASN VAL VAL LYS VAL VAL SER GLU ALA GLY ILE ALA LYS SEQRES 37 B 481 LEU VAL ALA ARG MET ARG PRO ILE GLY VAL ALA LYS GLY HET GLC C 1 22 HET FRU C 2 23 HET GLC D 1 22 HET FRU D 2 23 HET GLC E 1 22 HET FRU E 2 23 HET GAV A 501 32 HET MN A 502 1 HET MN A 503 1 HET SO4 A 504 5 HET SO4 A 505 5 HET SO4 A 506 5 HET SO4 A 507 5 HET SO4 A 508 5 HET SO4 A 509 5 HET SO4 A 510 5 HET SO4 A 511 5 HET SO4 A 512 5 HET GAV B 501 32 HET MN B 502 1 HET MN B 503 1 HET SO4 B 504 5 HET SO4 B 505 5 HET SO4 B 506 5 HET SO4 B 507 5 HET SO4 B 508 5 HET SO4 B 509 5 HET SO4 B 510 5 HET SO4 B 511 5 HET SO4 B 512 5 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM FRU BETA-D-FRUCTOFURANOSE HETNAM GAV GUANOSINE-5'-RP-ALPHA-THIO-TRIPHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN FRU BETA-D-FRUCTOSE; D-FRUCTOSE; FRUCTOSE FORMUL 3 GLC 3(C6 H12 O6) FORMUL 3 FRU 3(C6 H12 O6) FORMUL 6 GAV 2(C10 H16 N5 O13 P3 S) FORMUL 7 MN 4(MN 2+) FORMUL 9 SO4 18(O4 S 2-) FORMUL 30 HOH *398(H2 O) HELIX 1 1 ASP A 31 LYS A 39 1 9 HELIX 2 2 ARG A 42 ALA A 51 1 10 HELIX 3 3 SER A 88 ILE A 92 5 5 HELIX 4 4 GLU A 109 ARG A 113 1 5 HELIX 5 5 ARG A 115 VAL A 127 1 13 HELIX 6 6 ILE A 144 GLY A 151 1 8 HELIX 7 7 GLY A 151 ASN A 158 1 8 HELIX 8 8 TRP A 162 ARG A 174 5 13 HELIX 9 9 ASP A 179 VAL A 183 5 5 HELIX 10 10 SER A 184 ALA A 192 1 9 HELIX 11 11 PRO A 193 LEU A 195 5 3 HELIX 12 12 ASP A 215 TYR A 222 1 8 HELIX 13 13 SER A 237 ILE A 256 1 20 HELIX 14 14 ARG A 257 TYR A 259 5 3 HELIX 15 15 SER A 275 LYS A 312 1 38 HELIX 16 16 PRO A 365 ASP A 370 1 6 HELIX 17 17 THR A 391 THR A 398 1 8 HELIX 18 18 SER A 411 TYR A 419 1 9 HELIX 19 19 ARG A 420 ARG A 431 1 12 HELIX 20 20 MET A 440 GLU A 446 1 7 HELIX 21 21 ALA A 447 TYR A 451 5 5 HELIX 22 22 ASN A 453 ALA A 464 1 12 HELIX 23 23 ASP B 31 ASP B 41 1 11 HELIX 24 24 ARG B 42 ALA B 51 1 10 HELIX 25 25 SER B 88 ILE B 92 5 5 HELIX 26 26 THR B 108 ARG B 113 1 6 HELIX 27 27 ARG B 115 VAL B 127 1 13 HELIX 28 28 ILE B 144 GLY B 151 1 8 HELIX 29 29 GLY B 151 ASN B 158 1 8 HELIX 30 30 TRP B 162 ARG B 174 5 13 HELIX 31 31 ASP B 179 VAL B 183 5 5 HELIX 32 32 SER B 184 ALA B 192 1 9 HELIX 33 33 PRO B 193 LEU B 195 5 3 HELIX 34 34 ASP B 215 TYR B 222 1 8 HELIX 35 35 SER B 237 ALA B 255 1 19 HELIX 36 36 SER B 275 LYS B 312 1 38 HELIX 37 37 THR B 391 THR B 398 1 8 HELIX 38 38 SER B 411 TYR B 419 1 9 HELIX 39 39 ARG B 420 ASN B 430 1 11 HELIX 40 40 SER B 439 GLU B 446 1 8 HELIX 41 41 ALA B 447 TYR B 451 5 5 HELIX 42 42 ASN B 453 ALA B 464 1 12 SHEET 1 A 7 LYS A 6 ARG A 7 0 SHEET 2 A 7 ARG A 12 ILE A 15 -1 O GLU A 14 N LYS A 6 SHEET 3 A 7 GLY A 26 TYR A 29 -1 O VAL A 28 N TRP A 13 SHEET 4 A 7 SER A 60 HIS A 67 1 O VAL A 62 N TYR A 29 SHEET 5 A 7 ILE A 74 ASP A 81 -1 O GLY A 75 N MET A 63 SHEET 6 A 7 LYS A 342 LYS A 351 -1 O ILE A 347 N PHE A 80 SHEET 7 A 7 ASN A 330 VAL A 339 -1 N LYS A 333 O VAL A 348 SHEET 1 B 2 VAL A 86 ILE A 87 0 SHEET 2 B 2 VAL A 271 PRO A 272 -1 O VAL A 271 N ILE A 87 SHEET 1 C 7 ILE A 323 ALA A 328 0 SHEET 2 C 7 GLY A 99 THR A 108 -1 N LEU A 102 O VAL A 324 SHEET 3 C 7 GLN A 228 THR A 235 -1 O VAL A 229 N LEU A 107 SHEET 4 C 7 PHE A 204 ILE A 213 -1 N GLN A 208 O VAL A 230 SHEET 5 C 7 ALA A 467 LYS A 480 -1 O ALA A 479 N LEU A 205 SHEET 6 C 7 SER A 385 GLY A 390 -1 N ALA A 389 O LYS A 468 SHEET 7 C 7 PRO A 374 ILE A 377 -1 N VAL A 375 O LEU A 388 SHEET 1 D 6 ILE A 323 ALA A 328 0 SHEET 2 D 6 GLY A 99 THR A 108 -1 N LEU A 102 O VAL A 324 SHEET 3 D 6 GLN A 228 THR A 235 -1 O VAL A 229 N LEU A 107 SHEET 4 D 6 PHE A 204 ILE A 213 -1 N GLN A 208 O VAL A 230 SHEET 5 D 6 ALA A 467 LYS A 480 -1 O ALA A 479 N LEU A 205 SHEET 6 D 6 TYR A 434 ALA A 437 1 N ARG A 436 O VAL A 478 SHEET 1 E 2 THR A 354 ARG A 355 0 SHEET 2 E 2 SER A 401 THR A 402 -1 O THR A 402 N THR A 354 SHEET 1 F 7 LYS B 6 ASP B 9 0 SHEET 2 F 7 ARG B 12 ILE B 15 -1 O GLU B 14 N LYS B 6 SHEET 3 F 7 GLY B 26 TYR B 29 -1 O VAL B 28 N TRP B 13 SHEET 4 F 7 SER B 60 HIS B 67 1 O VAL B 62 N TYR B 29 SHEET 5 F 7 ILE B 74 ASP B 81 -1 O GLY B 75 N MET B 63 SHEET 6 F 7 LYS B 342 LYS B 351 -1 O HIS B 349 N ALA B 78 SHEET 7 F 7 ASN B 330 VAL B 339 -1 N LYS B 333 O VAL B 348 SHEET 1 G 2 VAL B 86 ILE B 87 0 SHEET 2 G 2 VAL B 271 PRO B 272 -1 O VAL B 271 N ILE B 87 SHEET 1 H 7 ILE B 323 ALA B 328 0 SHEET 2 H 7 GLY B 99 ILE B 103 -1 N LEU B 102 O VAL B 324 SHEET 3 H 7 VAL B 229 THR B 235 -1 O VAL B 231 N ILE B 103 SHEET 4 H 7 PHE B 204 ILE B 213 -1 N GLN B 208 O VAL B 230 SHEET 5 H 7 ALA B 467 LYS B 480 -1 O ALA B 479 N LEU B 205 SHEET 6 H 7 SER B 385 GLY B 390 -1 N ILE B 387 O ALA B 471 SHEET 7 H 7 PRO B 374 ILE B 377 -1 N VAL B 375 O LEU B 388 SHEET 1 I 6 ILE B 323 ALA B 328 0 SHEET 2 I 6 GLY B 99 ILE B 103 -1 N LEU B 102 O VAL B 324 SHEET 3 I 6 VAL B 229 THR B 235 -1 O VAL B 231 N ILE B 103 SHEET 4 I 6 PHE B 204 ILE B 213 -1 N GLN B 208 O VAL B 230 SHEET 5 I 6 ALA B 467 LYS B 480 -1 O ALA B 479 N LEU B 205 SHEET 6 I 6 TYR B 434 ALA B 437 1 N ARG B 436 O VAL B 478 SHEET 1 J 2 ALA B 353 ARG B 355 0 SHEET 2 J 2 SER B 401 CYS B 403 -1 O THR B 402 N THR B 354 LINK C1 GLC C 1 O2 FRU C 2 1555 1555 1.45 LINK C1 GLC D 1 O2 FRU D 2 1555 1555 1.42 LINK C1 GLC E 1 O2 FRU E 2 1555 1555 1.43 LINK OD2 ASP A 95 MN MN A 503 1555 1555 2.07 LINK SG CYS A 98 MN MN A 502 1555 1555 2.30 LINK SG CYS A 98 MN MN A 503 1555 1555 2.37 LINK NE2 HIS A 203 MN MN A 503 1555 1555 2.33 LINK NE2 HIS A 234 MN MN A 502 1555 1555 2.41 LINK NE2 HIS A 329 MN MN A 502 1555 1555 2.39 LINK O2A GAV A 501 MN MN A 502 1555 1555 2.23 LINK O3B GAV A 501 MN MN A 503 1555 1555 2.52 LINK OD2 ASP B 95 MN MN B 503 1555 1555 2.19 LINK SG CYS B 98 MN MN B 502 1555 1555 2.23 LINK SG CYS B 98 MN MN B 503 1555 1555 2.23 LINK NE2 HIS B 203 MN MN B 503 1555 1555 2.31 LINK NE2 HIS B 234 MN MN B 502 1555 1555 2.47 LINK NE2 HIS B 329 MN MN B 502 1555 1555 2.05 LINK O2A GAV B 501 MN MN B 502 1555 1555 2.26 LINK O3B GAV B 501 MN MN B 502 1555 1555 2.65 LINK O1G GAV B 501 MN MN B 503 1555 1555 2.52 CRYST1 81.108 138.912 149.469 90.00 90.00 90.00 P 21 21 21 8 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 0.012329 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007199 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006690 0.00000