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(-) Description

Title :  FORMATE DEHYDROGENASE N FROM E. COLI
 
Authors :  M. Jormakka, S. Tornroth, B. Byrne, S. Iwata
Date :  05 Jan 02  (Deposition) - 15 Mar 02  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (3x)
Keywords :  Oxidoreductase, Selenium, Selenocysteine, Secys, Molybdenum, Molybdopterin, Mpt, Molybdopterin Guanine Dinucleotide, Mgd, Iron Sulfur Cluster, Fe4S4, Formate, Dehydrogenase, Anaerobic, Integral Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Jormakka, S. Tornroth, B. Byrne, S. Iwata
Molecular Basis Of Proton Motive Force Generation: Structur Of Formate Dehydrogenase-N.
Science V. 295 1863 2002
PubMed-ID: 11884747  |  Reference-DOI: 10.1126/SCIENCE.1068186

(-) Compounds

Molecule 1 - FORMATE DEHYDROGENASE, NITRATE-INDUCIBLE, MAJOR SUBUNIT
    ChainsA
    EC Number1.2.1.2
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    StrainGL101
    SynonymFORMATE DEHYDROGENASE-N ALPHA SUBUNIT;
FDH-N ALPHA SUBUNIT
 
Molecule 2 - FORMATE DEHYDROGENASE, NITRATE-INDUCIBLE, IRON-SULFUR SUBUNIT
    ChainsB
    EC Number1.2.1.2
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    StrainGL101
    SynonymFORMATE DEHYDROGENASE-N BETA SUBUNIT;
FDH-N BETA SUBUNIT
 
Molecule 3 - FORMATE DEHYDROGENASE, NITRATE-INDUCIBLE, CYTOCHROME B556(FDN) SUBUNIT
    ChainsC
    EC Number1.2.1.2
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    Other DetailsHQNO COMPLEX
    StrainGL101
    SynonymFORMATE DEHYDROGENASE-N GAMMA SUBUNIT;
FDH-N GAMMA SUBUNIT

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit ABC
Biological Unit 1 (3x)ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 13)

Asymmetric Unit (7, 13)
No.NameCountTypeFull Name
16MO1Ligand/IonMOLYBDENUM(VI) ION
2CDL1Ligand/IonCARDIOLIPIN
3HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
4HQO1Ligand/Ion2-HEPTYL-4-HYDROXY QUINOLINE N-OXIDE
5MGD2Ligand/Ion2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINEDINUCLEOTIDE
6SEC1Mod. Amino Acid
7SF45Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 1 (6, 36)
No.NameCountTypeFull Name
16MO3Ligand/IonMOLYBDENUM(VI) ION
2CDL3Ligand/IonCARDIOLIPIN
3HEM6Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
4HQO3Ligand/Ion2-HEPTYL-4-HYDROXY QUINOLINE N-OXIDE
5MGD6Ligand/Ion2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINEDINUCLEOTIDE
6SEC-1Mod. Amino Acid
7SF415Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:50 , TYR A:52 , CYS A:53 , CYS A:57 , CYS A:92 , GLY A:95 , VAL A:239BINDING SITE FOR RESIDUE SF4 A 1016
02AC2SOFTWARECYS B:39 , ILE B:40 , GLY B:41 , CYS B:42 , LYS B:43 , CYS B:45 , MET B:80 , CYS B:179 , ILE B:184BINDING SITE FOR RESIDUE SF4 B 805
03AC3SOFTWARELYS B:32 , CYS B:49 , ASN B:53 , THR B:78 , LYS B:97 , CYS B:160 , THR B:161 , LEU B:162 , CYS B:163 , PRO B:173 , CYS B:175BINDING SITE FOR RESIDUE SF4 B 806
04AC4SOFTWARECYS B:100 , MET B:101 , CYS B:103 , GLY B:107 , CYS B:108 , CYS B:143 , PHE B:145 , LYS B:159BINDING SITE FOR RESIDUE SF4 B 807
05AC5SOFTWARECYS B:112 , PRO B:113 , SER B:114 , CYS B:133 , ILE B:134 , CYS B:136 , GLY B:137 , CYS B:139 , VAL B:157BINDING SITE FOR RESIDUE SF4 B 808
06AC6SOFTWARETYR A:101 , GLN A:192 , VAL A:195 , SEC A:196 , LEU A:410 , GLN A:414 , HIS A:448 , GLY A:556 , PHE A:557 , ASN A:558 , SER A:562 , ILE A:582 , ASP A:583 , PRO A:584 , THR A:587 , SER A:616 , THR A:617 , ASP A:649 , THR A:894 , ARG A:896 , HIS A:902 , THR A:903 , TRP A:904 , ASN A:989 , TYR A:1005 , LYS A:1006 , MGD A:1018 , 6MO A:1019 , HOH A:1030 , HOH A:1033 , HOH A:1042 , HOH A:1144 , HOH A:1146 , HOH A:1171 , HOH A:1173 , HOH A:1263BINDING SITE FOR RESIDUE MGD A 1017
07AC7SOFTWARELYS A:94 , SEC A:196 , GLY A:230 , GLY A:231 , ASN A:232 , GLU A:235 , ALA A:236 , ASP A:259 , PRO A:260 , ARG A:261 , THR A:263 , SER A:277 , GLY A:278 , ASP A:280 , ALA A:409 , LEU A:410 , GLY A:411 , HIS A:415 , GLY A:447 , HIS A:448 , THR A:893 , TYR A:895 , ARG A:896 , LEU A:897 , THR A:898 , HIS A:900 , PHE A:901 , HIS A:902 , LYS A:1006 , MGD A:1017 , 6MO A:1019 , HOH A:1032 , HOH A:1047 , HOH A:1086 , HOH A:1138BINDING SITE FOR RESIDUE MGD A 1018
08AC8SOFTWARESEC A:196 , MGD A:1017 , MGD A:1018 , HOH A:1053BINDING SITE FOR RESIDUE 6MO A 1019
09AC9SOFTWARETYR B:138 , TRP B:253 , VAL C:28 , ALA C:29 , GLY C:32 , PHE C:35 , PHE C:36 , ARG C:54 , HIS C:57 , PRO C:58 , GLY C:61 , LEU C:127 , LEU C:128 , GLY C:131 , HIS C:155 , HOH C:436 , HOH C:446 , HOH C:561BINDING SITE FOR RESIDUE HEM C 809
10BC1SOFTWAREARG C:9 , HIS C:18 , TRP C:19 , VAL C:21 , VAL C:22 , PHE C:25 , PHE C:75 , ASN C:79 , TYR C:109 , GLN C:113 , ILE C:166 , HIS C:169 , MET C:170 , ALA C:173 , SER C:179 , MET C:183 , HQO C:811 , HOH C:1294 , HOH C:1729BINDING SITE FOR RESIDUE HEM C 810
11BC2SOFTWAREASN C:110 , GLY C:112 , GLN C:113 , HIS C:169 , VAL C:176 , HEM C:810 , HOH C:1990BINDING SITE FOR RESIDUE HQO C 811
12BC3SOFTWAREASN B:15 , SER B:16 , PRO B:259 , ALA B:262 , ILE B:266 , HOH B:970 , HOH B:1059 , HOH B:1072 , HOH B:1089 , PHE C:25 , PHE C:26 , PHE C:37 , PRO C:38 , THR C:39 , PHE C:47BINDING SITE FOR RESIDUE CDL B 812

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1KQG)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Trp A:771 -Pro A:772
2Asn B:68 -Pro B:69
3Arg C:136 -Pro C:137

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KQG)

(-) PROSITE Motifs  (5, 8)

Asymmetric Unit (5, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
14FE4S_FER_2PS51379 4Fe-4S ferredoxin-type iron-sulfur binding domain profile.FDNH_ECOLI30-58
124-153
91-123
158-189
  4B:30-58
B:124-153
B:91-123
B:158-189
24FE4S_MOW_BIS_MGDPS51669 Prokaryotic molybdopterin oxidoreductases 4Fe-4S domain profile.FDNG_ECOLI43-106  1A:43-106
3MOLYBDOPTERIN_PROK_1PS00551 Prokaryotic molybdopterin oxidoreductases signature 1.FDNG_ECOLI48-66  1A:48-66
44FE4S_FER_1PS00198 4Fe-4S ferredoxin-type iron-sulfur binding region signature.FDNH_ECOLI133-144  1B:133-144
5MOLYBDOPTERIN_PROK_3PS00932 Prokaryotic molybdopterin oxidoreductases signature 3.FDNG_ECOLI927-954  1A:927-954
Biological Unit 1 (5, 24)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
14FE4S_FER_2PS51379 4Fe-4S ferredoxin-type iron-sulfur binding domain profile.FDNH_ECOLI30-58
124-153
91-123
158-189
  12B:30-58
B:124-153
B:91-123
B:158-189
24FE4S_MOW_BIS_MGDPS51669 Prokaryotic molybdopterin oxidoreductases 4Fe-4S domain profile.FDNG_ECOLI43-106  3A:43-106
3MOLYBDOPTERIN_PROK_1PS00551 Prokaryotic molybdopterin oxidoreductases signature 1.FDNG_ECOLI48-66  3A:48-66
44FE4S_FER_1PS00198 4Fe-4S ferredoxin-type iron-sulfur binding region signature.FDNH_ECOLI133-144  3B:133-144
5MOLYBDOPTERIN_PROK_3PS00932 Prokaryotic molybdopterin oxidoreductases signature 3.FDNG_ECOLI927-954  3A:927-954

(-) Exons   (0, 0)

(no "Exon" information available for 1KQG)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:982
 aligned with FDNG_ECOLI | P24183 from UniProtKB/Swiss-Prot  Length:1015

    Alignment length:982
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003      1013  
          FDNG_ECOLI     34 QARNYKLLRAKEIRNTCTYCSVGCGLLMYSLGDGAKNAREAIYHIEGDPDHPVSRGALCPKGAGLLDYVNSENRLRYPEYRAPGSDKWQRISWEEAFSRIAKLMKADRDANFIEKNEQGVTVNRWLSTGMLCASGASNETGMLTQKFARSLGMLAVDNQARVUHGPTVASLAPTFGRGAMTNHWVDIKNANVVMVMGGNAAEAHPVGFRWAMEAKNNNDATLIVVDPRFTRTASVADIYAPIRSGTDITFLSGVLRYLIENNKINAEYVKHYTNASLLVRDDFAFEDGLFSGYDAEKRQYDKSSWNYQLDENGYAKRDETLTHPRCVWNLLKEHVSRYTPDVVENICGTPKADFLKVCEVLASTSAPDRTTTFLYALGWTQHTVGAQNIRTMAMIQLLLGNMGMAGGGVNALRGHSNIQGLTDLGLLSTSLPGYLTLPSEKQVDLQSYLEANTPKATLADQVNYWSNYPKFFVSLMKSFYGDAAQKENNWGYDWLPKWDQTYDVIKYFNMMDEGKVTGYFCQGFNPVASFPDKNKVVSCLSKLKYMVVIDPLVTETSTFWQNHGESNDVDPASIQTEVFRLPSTCFAEEDGSIANSGRWLQWHWKGQDAPGEARNDGEILAGIYHHLRELYQSEGGKGVEPLMKMSWNYKQPHEPQSDEVAKENNGYALEDLYDANGVLIAKKGQLLSSFAHLRDDGTTASSCWIYTGSWTEQGNQMANRDNSDPSGLGNTLGWAWAWPLNRRVLYNRASADINGKPWDPKRMLIQWNGSKWTGNDIPDFGNAAPGTPTGPFIMQPEGMGRLFAINKMAEGPFPEHYEPIETPLGTNPLHPNVVSNPVVRLYEQDALRMGKKEQFPYVGTTYRLTEHFHTWTKHALLNAIAQPEQFVEISETLAAAKGINNGDRVTVSSKRGFIRAVAVVTRRLKPLNVNGQQVETVGIPIHWGFEGVARKGYIANTLTPNVGDANSQTPEYKAFLVNIEKA 1015
               SCOP domains d1kqga2 A:34-850 Formate dehydrogenase N, alpha subunit                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          d1kqga1 A:851-1015 Formate dehydrogenase N, alpha subunit                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------1kqgA02 A:107-194,A:532-682  [code=3.40.50.740, no name defined]                        1kqgA03 A:195-307,A:360-449,A:776-839 Dimethylsulfoxide Reductase, domain 2                                      ----------------------------------------------------1kqgA03 A:195-307,A:360-449,A:776-839 Dimethylsulfoxide Reductase, domain 2               ----------------------------------------------------------------------------------1kqgA02 A:107-194,A:532-682  [code=3.40.50.740, no name defined]                                                                                       ---------------------------------------------------------------------------------------------1kqgA03 A:195-307,A:360-449,A:776-839                           1kqgA04 A:840-1015  [code=2.40.40.20, no name defined]                                                                                                                           CATH domains
               Pfam domains ---------Molybdop_Fe4S4-1kqgA02 A:43-104                               --Molybdopterin-1kqgA03 A:107-593                                                                                                                                                                                                                                                                                                                                                                                                                                                                        --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Molydop_binding-1kqgA01 A:890-1009                                                                                      ------ Pfam domains
         Sec.struct. author ..........eeeeee........eeeeeee.........eeeeeee...........hhhhhhhhhhhh........eee.......ee.hhhhhhhhhhhhhhhhhhhhheee.....eeee...eeeee....hhhhhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhh.......hhhhhhh.eeeee..hhhhhhhhhhhhhhhhhhhh..eeeee....hhhhhh..eee.....hhhhhhhhhhhhhhhh...hhhhhhhhh...........ee..ee..ee....ee.........................hhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhhhh....eeeeehhhhhh..hhhhhhhhhhhhhhhh.........eee.....hhhhhhhh.....eehhhee.......hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh....eeeee..hhhhhh.hhhhhhhhhh...eeeeee....hhhhh...hhhhhh.hhhhh..eeeeee..hhhhh.eeee....eeeee...........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhh..........hhhhhhhhhhhee...ee.....eee.......hhhhh.....ee..hhhhh..ee..ee.hhh................ee........hhhhhh.......hhhhh.eee....eee...................................................................hhhhhh.........eeeeee........hhhhhhhhhhhh...eeeehhhhhhhhh.....eeeeee..eeeeeeeee......eee..eee.eeeee.............hhhhh................eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---------4FE4S_MOW_BIS_MGD  PDB: A:43-106 UniProt: 43-106                --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) --------------MOLYBDOPTERIN_PROK_------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (1) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MOLYBDOPTERIN_PROK_3        ------------------------------------------------------------- PROSITE (1)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1kqg A   34 QARNYKLLRAKEIRNTCTYCSVGCGLLMYSLGDGAKNAREAIYHIEGDPDHPVSRGALCPKGAGLLDYVNSENRLRYPEYRAPGSDKWQRISWEEAFSRIAKLMKADRDANFIEKNEQGVTVNRWLSTGMLCASGASNETGMLTQKFARSLGMLAVDNQARVxHGPTVASLAPTFGRGAMTNHWVDIKNANVVMVMGGNAAEAHPVGFRWAMEAKNNNDATLIVVDPRFTRTASVADIYAPIRSGTDITFLSGVLRYLIENNKINAEYVKHYTNASLLVRDDFAFEDGLFSGYDAEKRQYDKSSWNYQLDENGYAKRDETLTHPRCVWNLLKEHVSRYTPDVVENICGTPKADFLKVCEVLASTSAPDRTTTFLYALGWTQHTVGAQNIRTMAMIQLLLGNMGMAGGGVNALRGHSNIQGLTDLGLLSTSLPGYLTLPSEKQVDLQSYLEANTPKATLADQVNYWSNYPKFFVSLMKSFYGDAAQKENNWGYDWLPKWDQTYDVIKYFNMMDEGKVTGYFCQGFNPVASFPDKNKVVSCLSKLKYMVVIDPLVTETSTFWQNHGESNDVDPASIQTEVFRLPSTCFAEEDGSIANSGRWLQWHWKGQDAPGEARNDGEILAGIYHHLRELYQSEGGKGVEPLMKMSWNYKQPHEPQSDEVAKENNGYALEDLYDANGVLIAKKGQLLSSFAHLRDDGTTASSCWIYTGSWTEQGNQMANRDNSDPSGLGNTLGWAWAWPLNRRVLYNRASADINGKPWDPKRMLIQWNGSKWTGNDIPDFGNAAPGTPTGPFIMQPEGMGRLFAINKMAEGPFPEHYEPIETPLGTNPLHPNVVSNPVVRLYEQDALRMGKKEQFPYVGTTYRLTEHFHTWTKHALLNAIAQPEQFVEISETLAAAKGINNGDRVTVSSKRGFIRAVAVVTRRLKPLNVNGQQVETVGIPIHWGFEGVARKGYIANTLTPNVGDANSQTPEYKAFLVNIEKA 1015
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193  |    203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003      1013  
                                                                                                                                                                                            196-SEC                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               

Chain B from PDB  Type:PROTEIN  Length:289
 aligned with FDNH_ECOLI | P0AAJ3 from UniProtKB/Swiss-Prot  Length:294

    Alignment length:289
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281         
          FDNH_ECOLI      2 AMETQDIIKRSATNSITPPSQVRDYKAEVAKLIDVSTCIGCKACQVACSEWNDIRDEVGHCVGVYDNPADLSAKSWTVMRFSETEQNGKLEWLIRKDGCMHCEDPGCLKACPSAGAIIQYANGIVDFQSENCIGCGYCIAGCPFNIPRLNKEDNRVYKCTLCVDRVSVGQEPACVKTCPTGAIHFGTKKEMLELAEQRVAKLKARGYEHAGVYNPEGVGGTHVMYVLHHADQPELYHGLPKDPKIDTSVSLWKGALKPLAAAGFIATFAGLIFHYIGIGPNKEVDDDEE  290
               SCOP domains d1kqgb1 B:2-245 Formate dehydrogenase N, iron-sulfur (beta) subunit                                                                                                                                                                                 d1kqgb2 B:246-290                             SCOP domains
               CATH domains 1kqgB01 B:2-27,B:99-162   1kqgB02 B:28-98,B:163-228  [code=3.30.70.20, no name defined]          1kqgB01 B:2-27,B:99-162  [code=3.30.70.20, no name defined]     1kqgB02 B:28-98,B:163-228  [code=3.30.70.20, no name defined]     ------------------1kqgB03 B:247-290 Single helix bin           CATH domains
           Pfam domains (1) ----------------------------------Fer4_4-1kqgB03       -----------------------------------Fer4_10-1kqgB01 B:92-144                             -----------------------------------------------------------------------------------------------------Form-deh_trans-1kqgB04 B:246-290              Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------------------------------------Fer4_11-1kqgB02 B:91-189                                                                           ----------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ......eeee..................eeeeee.hhh...hhhhhhhhhhhh........................eeeeeee......eeeeeee.......hhhhhhh.....eeee....eee.hhhh...hhhhhhh.....ee......ee....hhhhhh....hhhhhhh....eeeeehhhhhhhhhhhhhhhhhh.....eee.hhhhh...eeeee....hhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------4FE4S_FER_2  PDB: B:30-58    --------------------------------4FE4S_FER_2  PDB: B:91-123       4FE4S_FER_2  PDB: B:124-153   ----4FE4S_FER_2  PDB: B:158-189     ----------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------------4FE4S_FER_1 -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1kqg B    2 AMETQDIIKRSATNSITPPSQVRDYKAEVAKLIDVSTCIGCKACQVACSEWNDIRDEVGHCVGVYDNPADLSAKSWTVMRFSETEQNGKLEWLIRKDGCMHCEDPGCLKACPSAGAIIQYANGIVDFQSENCIGCGYCIAGCPFNIPRLNKEDNRVYKCTLCVDRVSVGQEPACVKTCPTGAIHFGTKKEMLELAEQRVAKLKARGYEHAGVYNPEGVGGTHVMYVLHHADQPELYHGLPKDPKIDTSVSLWKGALKPLAAAGFIATFAGLIFHYIGIGPNKEVDDDEE  290
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281         

Chain C from PDB  Type:PROTEIN  Length:216
 aligned with FDNI_ECO57 | P0AEK8 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:216
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      
          FDNI_ECO57      2 SKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI  217
               SCOP domains d1kqgc_ C: Formate dehydrogenase N, cytochrome (gamma) subunit                                                                                                                                                           SCOP domains
               CATH domains 1kqgC00 C:2-217 Transmembrane di-heme cytochromes, Chain C                                                                                                                                                               CATH domains
               Pfam domains -----Cytochrom_B_N-1kqgC01 C:7-186                                                                                                                                                       ------------------------------- Pfam domains
         Sec.struct. author ....eee..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1kqg C    2 SKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI  217
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      

Chain C from PDB  Type:PROTEIN  Length:216
 aligned with FDNI_ECOLI | P0AEK7 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:216
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      
          FDNI_ECOLI      2 SKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI  217
               SCOP domains d1kqgc_ C: Formate dehydrogenase N, cytochrome (gamma) subunit                                                                                                                                                           SCOP domains
               CATH domains 1kqgC00 C:2-217 Transmembrane di-heme cytochromes, Chain C                                                                                                                                                               CATH domains
               Pfam domains -----Cytochrom_B_N-1kqgC01 C:7-186                                                                                                                                                       ------------------------------- Pfam domains
         Sec.struct. author ....eee..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1kqg C    2 SKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI  217
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      

Chain C from PDB  Type:PROTEIN  Length:216
 aligned with FDNI_SHIFL | P0AEK9 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:216
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      
          FDNI_SHIFL      2 SKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI  217
               SCOP domains d1kqgc_ C: Formate dehydrogenase N, cytochrome (gamma) subunit                                                                                                                                                           SCOP domains
               CATH domains 1kqgC00 C:2-217 Transmembrane di-heme cytochromes, Chain C                                                                                                                                                               CATH domains
               Pfam domains -----Cytochrom_B_N-1kqgC01 C:7-186                                                                                                                                                       ------------------------------- Pfam domains
         Sec.struct. author ....eee..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1kqg C    2 SKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI  217
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (5, 5)

Asymmetric Unit

(-) CATH Domains  (6, 7)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (8, 8)

Asymmetric Unit
(-)
Clan: 4Fe-4S (51)

(-) Gene Ontology  (27, 70)

Asymmetric Unit(hide GO term definitions)
Chain A   (FDNG_ECOLI | P24183)
molecular function
    GO:0051539    4 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0008863    formate dehydrogenase (NAD+) activity    Catalysis of the reaction: formate + NAD(+) = CO(2) + NADH.
    GO:0047111    formate dehydrogenase (cytochrome-c-553) activity    Catalysis of the reaction: ferricytochrome C-553 + formate = ferrocytochrome C-553 + CO2.
    GO:0036397    formate dehydrogenase (quinone) activity    Catalysis of the reaction: formate + a quinone = CO2 + a quinol.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0030151    molybdenum ion binding    Interacting selectively and non-covalently with molybdenum (Mo) ions.
    GO:0043546    molybdopterin cofactor binding    Interacting selectively and non-covalently with the molybdopterin cofactor (Moco), essential for the catalytic activity of some enzymes, e.g. sulfite oxidase, xanthine dehydrogenase, and aldehyde oxidase. The cofactor consists of a mononuclear molybdenum (Mo-molybdopterin) or tungsten ion (W-molybdopterin) coordinated by one or two molybdopterin ligands.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0008430    selenium binding    Interacting selectively and non-covalently with selenium (Se).
biological process
    GO:0009061    anaerobic respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor.
    GO:0045333    cellular respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration).
    GO:0015944    formate oxidation    The chemical reactions and pathways by which formate is converted to CO2.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0009326    formate dehydrogenase complex    An enzyme complex that catalyzes the dehydrogenation of formate to produce carbon dioxide (CO2).
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

Chain B   (FDNH_ECOLI | P0AAJ3)
molecular function
    GO:0051539    4 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0036397    formate dehydrogenase (quinone) activity    Catalysis of the reaction: formate + a quinone = CO2 + a quinol.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0009061    anaerobic respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor.
    GO:0045333    cellular respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration).
    GO:0015944    formate oxidation    The chemical reactions and pathways by which formate is converted to CO2.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0009326    formate dehydrogenase complex    An enzyme complex that catalyzes the dehydrogenation of formate to produce carbon dioxide (CO2).
    GO:0071575    integral component of external side of plasma membrane    The component of the plasma membrane consisting of the gene products that penetrate only the external side of the membrane.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain C   (FDNI_SHIFL | P0AEK9)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0008863    formate dehydrogenase (NAD+) activity    Catalysis of the reaction: formate + NAD(+) = CO(2) + NADH.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0045333    cellular respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration).
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0022904    respiratory electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
cellular component
    GO:0009326    formate dehydrogenase complex    An enzyme complex that catalyzes the dehydrogenation of formate to produce carbon dioxide (CO2).
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain C   (FDNI_ECOLI | P0AEK7)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0008863    formate dehydrogenase (NAD+) activity    Catalysis of the reaction: formate + NAD(+) = CO(2) + NADH.
    GO:0036397    formate dehydrogenase (quinone) activity    Catalysis of the reaction: formate + a quinone = CO2 + a quinol.
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0009061    anaerobic respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor.
    GO:0045333    cellular respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration).
    GO:0015944    formate oxidation    The chemical reactions and pathways by which formate is converted to CO2.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0022904    respiratory electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
cellular component
    GO:0009326    formate dehydrogenase complex    An enzyme complex that catalyzes the dehydrogenation of formate to produce carbon dioxide (CO2).
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain C   (FDNI_ECO57 | P0AEK8)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0008863    formate dehydrogenase (NAD+) activity    Catalysis of the reaction: formate + NAD(+) = CO(2) + NADH.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0045333    cellular respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration).
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0022904    respiratory electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
cellular component
    GO:0009326    formate dehydrogenase complex    An enzyme complex that catalyzes the dehydrogenation of formate to produce carbon dioxide (CO2).
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FDNG_ECOLI | P241831kqf
        FDNH_ECOLI | P0AAJ31kqf
        FDNI_ECO57 | P0AEK81kqf
        FDNI_ECOLI | P0AEK71kqf
        FDNI_SHIFL | P0AEK91kqf

(-) Related Entries Specified in the PDB File

1kqf NATIVE STRUCTURE