HEADER METAL BINDING PROTEIN 31-DEC-25 21WB TITLE NZD DOMAIN OF MOUSE RAG1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: V(D)J RECOMBINATION-ACTIVATING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RAG-1; COMPND 5 EC: 3.1.-.-,2.3.2.27; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: RAG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS ZINC-BINDING PROTEIN, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.Y.HONG,Z.J.LIU,Y.H.ZHANG REVDAT 1 10-JUN-26 21WB 0 JRNL AUTH J.Y.HONG,Z.J.LIU,Y.H.ZHANG JRNL TITL STRUCTURAL AND EVOLUTIONARY DIVERGENCE OF THE RAG1/1L JRNL TITL 2 N-TERMINAL ZINC-COORDINATING DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH 3.06 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 21WB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 07-JAN-26. REMARK 100 THE DEPOSITION ID IS D_1300067146. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 150 MM SODIUM CHLORIDE, 10 MM 3 REMARK 210 -(N-MORPHOLINO)PROPANESULFONIC REMARK 210 ACID, 0.2 MM TCEP, 0.6 MM [U-13C; REMARK 210 U-15N] MRAG1NZD, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HNCO; 3D HN(CA)CO; REMARK 210 3D HBHA(CO)NH; 3D H(CCO)NH; 3D REMARK 210 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, NMRPIPE, NMRFAM-SPARKY REMARK 210 1.47 REMARK 210 METHOD USED : NA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 1 ALA A 6 111.28 -170.67 REMARK 500 1 LYS A 9 137.06 64.20 REMARK 500 1 SER A 10 -47.07 -133.22 REMARK 500 1 SER A 11 175.58 56.64 REMARK 500 1 ARG A 60 134.46 -177.98 REMARK 500 1 HIS A 104 -62.99 -90.19 REMARK 500 1 VAL A 113 -54.79 71.47 REMARK 500 1 ARG A 132 -80.86 61.33 REMARK 500 1 LEU A 134 34.22 -168.37 REMARK 500 2 ALA A 6 83.11 56.27 REMARK 500 2 SER A 11 176.27 55.42 REMARK 500 2 SER A 33 -1.88 72.27 REMARK 500 2 SER A 102 82.57 47.37 REMARK 500 2 HIS A 104 178.24 59.82 REMARK 500 2 SER A 105 153.69 62.12 REMARK 500 2 GLN A 106 96.65 54.95 REMARK 500 2 CYS A 124 93.88 -63.04 REMARK 500 2 PHE A 128 76.00 -101.62 REMARK 500 2 ARG A 132 175.08 56.13 REMARK 500 2 LEU A 134 -44.56 -134.22 REMARK 500 3 PHE A 4 -78.42 64.11 REMARK 500 3 HIS A 5 -57.60 -149.13 REMARK 500 3 SER A 33 -3.27 70.17 REMARK 500 3 GLU A 58 90.43 57.62 REMARK 500 3 ALA A 130 176.55 58.29 REMARK 500 3 ARG A 132 -35.09 -133.46 REMARK 500 3 LEU A 134 -44.65 -164.47 REMARK 500 4 PHE A 4 96.24 52.80 REMARK 500 4 LYS A 32 -166.59 55.55 REMARK 500 4 HIS A 36 42.29 -151.19 REMARK 500 4 CYS A 124 93.94 -66.45 REMARK 500 4 HIS A 131 172.32 56.53 REMARK 500 4 LEU A 134 -58.60 -170.15 REMARK 500 4 LYS A 135 106.57 -164.54 REMARK 500 5 LYS A 3 93.98 51.19 REMARK 500 5 ASP A 12 -2.45 62.28 REMARK 500 5 LYS A 32 -171.24 57.31 REMARK 500 5 HIS A 36 62.95 -171.97 REMARK 500 5 VAL A 113 47.14 -160.14 REMARK 500 5 ALA A 130 -52.53 -137.63 REMARK 500 5 ARG A 132 48.47 -85.22 REMARK 500 5 LEU A 134 -58.56 -167.76 REMARK 500 6 ASP A 7 88.64 51.56 REMARK 500 6 SER A 10 -31.90 -151.57 REMARK 500 6 LYS A 112 35.54 -88.62 REMARK 500 6 CYS A 124 92.73 -63.65 REMARK 500 6 ALA A 130 -67.57 174.93 REMARK 500 6 HIS A 131 33.70 -152.22 REMARK 500 6 ARG A 132 163.00 60.25 REMARK 500 6 LEU A 134 56.23 -173.83 REMARK 500 REMARK 500 THIS ENTRY HAS 84 RAMACHANDRAN OUTLIERS. 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 ZN A 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 16 NE2 REMARK 620 2 HIS A 120 ND1 109.4 REMARK 620 3 CYS A 124 SG 109.3 110.0 REMARK 620 4 CYS A 127 SG 109.5 109.6 109.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 24 SG REMARK 620 2 CYS A 27 SG 109.7 REMARK 620 3 CYS A 89 SG 109.5 109.5 REMARK 620 4 CYS A 92 SG 109.4 109.5 109.1 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36821 RELATED DB: BMRB REMARK 900 NZD DOMAIN OF MOUSE RAG1 DBREF 21WB A 3 137 UNP P15919 RAG1_MOUSE 89 223 SEQADV 21WB GLY A 1 UNP P15919 EXPRESSION TAG SEQADV 21WB PRO A 2 UNP P15919 EXPRESSION TAG SEQRES 1 A 137 GLY PRO LYS PHE HIS ALA ASP GLY LYS SER SER ASP LYS SEQRES 2 A 137 ALA VAL HIS GLN ALA ARG LEU ARG HIS PHE CYS ARG ILE SEQRES 3 A 137 CYS GLY ASN ARG PHE LYS SER ASP GLY HIS SER ARG ARG SEQRES 4 A 137 TYR PRO VAL HIS GLY PRO VAL ASP ALA LYS THR GLN SER SEQRES 5 A 137 LEU PHE ARG LYS LYS GLU LYS ARG VAL THR SER TRP PRO SEQRES 6 A 137 ASP LEU ILE ALA ARG ILE PHE ARG ILE ASP VAL LYS ALA SEQRES 7 A 137 ASP VAL ASP SER ILE HIS PRO THR GLU PHE CYS HIS ASP SEQRES 8 A 137 CYS TRP SER ILE MET HIS ARG LYS PHE SER SER SER HIS SEQRES 9 A 137 SER GLN VAL TYR PHE PRO ARG LYS VAL THR VAL GLU TRP SEQRES 10 A 137 HIS PRO HIS THR PRO SER CYS ASP ILE CYS PHE THR ALA SEQRES 11 A 137 HIS ARG GLY LEU LYS ARG LYS HET ZN A 201 1 HET ZN A 202 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 AA1 ASP A 12 HIS A 22 1 11 HELIX 2 AA2 ASP A 47 GLU A 58 1 12 HELIX 3 AA3 SER A 63 ARG A 73 1 11 HELIX 4 AA4 ASP A 75 ASP A 79 5 5 HELIX 5 AA5 HIS A 90 SER A 102 1 13 SHEET 1 AA1 2 ARG A 39 PRO A 41 0 SHEET 2 AA1 2 GLU A 87 CYS A 89 -1 O PHE A 88 N TYR A 40 LINK NE2 HIS A 16 ZN ZN A 202 1555 1555 2.30 LINK SG CYS A 24 ZN ZN A 201 1555 1555 2.30 LINK SG CYS A 27 ZN ZN A 201 1555 1555 2.31 LINK SG CYS A 89 ZN ZN A 201 1555 1555 2.30 LINK SG CYS A 92 ZN ZN A 201 1555 1555 2.30 LINK ND1 HIS A 120 ZN ZN A 202 1555 1555 2.31 LINK SG CYS A 124 ZN ZN A 202 1555 1555 2.31 LINK SG CYS A 127 ZN ZN A 202 1555 1555 2.30 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL CONECT 226 2247 CONECT 371 2246 CONECT 424 2246 CONECT 1444 2246 CONECT 1484 2246 CONECT 1963 2247 CONECT 2018 2247 CONECT 2059 2247 CONECT 2246 371 424 1444 1484 CONECT 2247 226 1963 2018 2059 MASTER 168 0 2 5 2 0 0 6 1131 1 10 11 END