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(-) Description

Title :  X-RAY STRUCTURE OF NIKA IN COMPLEX WITH FE(1S,2S)-N,N-KAPPA-BIS(2-PYRIDYLMETHYL)-N-CARBOXYMETHYL-N-KAPPA-METHYL-1,2-CYCLOHEXANEDIAMINE
 
Authors :  M. V. Cherrier, E. Girgenti, P. Amara, M. Iannello, C. Marchi-Delapier J. C. Fontecilla-Camps, S. Menage, C. Cavazza
Date :  18 Jan 12  (Deposition) - 09 May 12  (Release) - 13 Jun 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transport Protein, Protein-Bound Iron Complex, Metal Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. V. Cherrier, E. Girgenti, P. Amara, M. Iannello, C. Marchi-Delapierre, J. C. Fontecilla-Camps, S. Menage, C. Cavazza
The Structure Of The Periplasmic Nickel-Binding Protein Nik Provides Insights For Artificial Metalloenzyme Design.
J. Biol. Inorg. Chem. V. 17 817 2012
PubMed-ID: 22526565  |  Reference-DOI: 10.1007/S00775-012-0899-7

(-) Compounds

Molecule 1 - NICKEL-BINDING PERIPLASMIC PROTEIN
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28B
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneB3476, JW3441, NIKA
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 44)

Asymmetric Unit (5, 44)
No.NameCountTypeFull Name
1ACT20Ligand/IonACETATE ION
2GOL18Ligand/IonGLYCEROL
3L2M2Ligand/Ion{(R)-N-[(1S,2S)-2-{METHYL[(PYRIDIN-2-YL-KAPPAN)METHYL]AMINO-KAPPAN}CYCLOHEXYL]-N-[(PYRIDIN-2-YL-KAPPAN)METHYL]GLYCINATO-KAPPA~2~N,O}IRON(2+)
4SO42Ligand/IonSULFATE ION
5UNX2Ligand/IonUNKNOWN ATOM OR ION
Biological Unit 1 (5, 32)
No.NameCountTypeFull Name
1ACT15Ligand/IonACETATE ION
2GOL13Ligand/IonGLYCEROL
3L2M1Ligand/Ion{(R)-N-[(1S,2S)-2-{METHYL[(PYRIDIN-2-YL-KAPPAN)METHYL]AMINO-KAPPAN}CYCLOHEXYL]-N-[(PYRIDIN-2-YL-KAPPAN)METHYL]GLYCINATO-KAPPA~2~N,O}IRON(2+)
4SO41Ligand/IonSULFATE ION
5UNX2Ligand/IonUNKNOWN ATOM OR ION
Biological Unit 2 (4, 12)
No.NameCountTypeFull Name
1ACT5Ligand/IonACETATE ION
2GOL5Ligand/IonGLYCEROL
3L2M1Ligand/Ion{(R)-N-[(1S,2S)-2-{METHYL[(PYRIDIN-2-YL-KAPPAN)METHYL]AMINO-KAPPAN}CYCLOHEXYL]-N-[(PYRIDIN-2-YL-KAPPAN)METHYL]GLYCINATO-KAPPA~2~N,O}IRON(2+)
4SO41Ligand/IonSULFATE ION
5UNX-1Ligand/IonUNKNOWN ATOM OR ION

(-) Sites  (42, 42)

Asymmetric Unit (42, 42)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:52 , ARG A:68 , ASP A:69 , ASP A:70 , GOL A:628 , HOH A:1158BINDING SITE FOR RESIDUE ACT A 601
02AC2SOFTWARELEU A:263 , HOH A:752 , HOH A:761BINDING SITE FOR RESIDUE ACT A 602
03AC3SOFTWARESER A:243 , GLN A:244 , PRO A:245 , GLN A:288 , HOH A:860 , HOH A:948 , HOH A:1075 , HOH A:1086 , GLN B:288 , SER B:297 , HOH B:857BINDING SITE FOR RESIDUE ACT A 603
04AC4SOFTWARELYS A:316 , HOH A:938 , LYS B:354 , HOH B:837BINDING SITE FOR RESIDUE ACT A 604
05AC5SOFTWARETYR A:300 , HOH A:1213 , ASN B:482BINDING SITE FOR RESIDUE ACT A 605
06AC6SOFTWAREPRO A:245 , GLN A:288 , ALA A:295 , SER A:297 , TYR A:469 , HOH A:759 , HOH A:1130 , GLN B:244 , HOH B:953BINDING SITE FOR RESIDUE ACT A 606
07AC7SOFTWAREGLN A:26 , MET A:27 , L2M A:629 , HOH A:776 , HOH A:787 , HOH A:1187BINDING SITE FOR RESIDUE ACT A 607
08AC8SOFTWARELYS A:335 , ASN A:336 , GLY A:337 , HOH A:1181 , GOL B:607 , HOH B:911 , HOH B:1096BINDING SITE FOR RESIDUE ACT A 608
09AC9SOFTWAREGLU A:210 , THR A:228 , ARG A:231 , HOH A:869 , HOH A:1190 , HOH A:1192 , HOH A:1217BINDING SITE FOR RESIDUE ACT A 609
10BC1SOFTWARELYS A:330 , ASP A:331 , ARG A:365 , LYS B:148BINDING SITE FOR RESIDUE ACT A 610
11BC2SOFTWAREGLN A:361 , LEU A:373 , HOH A:1004 , HOH A:1099 , HOH A:1117 , HOH A:1160 , HOH A:1196 , HOH B:821BINDING SITE FOR RESIDUE ACT A 611
12BC3SOFTWAREPRO A:429 , LEU A:430 , LYS A:433BINDING SITE FOR RESIDUE ACT A 612
13BC4SOFTWARESER A:53 , TRP A:54 , HOH A:1106 , HOH A:1153 , HOH A:1201 , HOH A:1227BINDING SITE FOR RESIDUE ACT A 613
14BC5SOFTWAREASN A:235 , ALA A:237 , TYR A:238 , PHE A:419 , GLN A:423 , HOH A:835 , HOH A:1146BINDING SITE FOR RESIDUE ACT A 614
15BC6SOFTWAREASP A:453 , HOH A:898 , HOH A:1098BINDING SITE FOR RESIDUE ACT A 615
16BC7SOFTWARELYS A:148 , ASN A:149 , LYS A:157BINDING SITE FOR RESIDUE GOL A 616
17BC8SOFTWAREARG A:89 , LEU A:92 , ARG A:95 , VAL A:108 , ASP A:109 , VAL A:110 , ASN A:281 , HOH A:971BINDING SITE FOR RESIDUE GOL A 617
18BC9SOFTWARESER A:31 , MET A:32 , LYS A:39 , GLU A:491 , ILE A:492 , GLU A:495 , HOH A:716 , HOH A:857 , HOH A:970 , HOH A:1177BINDING SITE FOR RESIDUE GOL A 618
19CC1SOFTWAREASN A:220 , GLU A:221 , GLY A:222 , ASP A:350 , LEU A:352 , SER A:353 , HOH A:977 , HOH A:981 , HOH A:1178 , HOH A:1205BINDING SITE FOR RESIDUE GOL A 619
20CC2SOFTWAREPRO A:11 , GLY A:219 , ASN A:220 , GLY A:222 , LEU A:223 , GOL A:626 , HOH A:1205BINDING SITE FOR RESIDUE GOL A 620
21CC3SOFTWAREASP A:427 , ARG A:457BINDING SITE FOR RESIDUE GOL A 621
22CC4SOFTWAREASN A:75 , GLY A:76 , HOH A:1222 , THR B:203 , PRO B:225 , ASP B:227 , ACT B:603 , HOH B:1063BINDING SITE FOR RESIDUE GOL A 622
23CC5SOFTWAREALA A:99 , ARG A:231 , GLN A:234 , TYR A:284 , VAL A:413 , HOH A:1087 , HOH A:1105BINDING SITE FOR RESIDUE GOL A 623
24CC6SOFTWAREASP A:109 , THR A:121 , LYS A:354 , GLU A:358 , GOL A:627 , HOH A:1083 , HOH A:1136 , HOH A:1194BINDING SITE FOR RESIDUE GOL A 624
25CC7SOFTWARETYR A:22 , THR A:23 , ARG A:97 , HOH A:1214 , TYR B:271 , LYS B:306 , LYS B:314BINDING SITE FOR RESIDUE GOL A 625
26CC8SOFTWARETRP A:10 , MET A:472 , ALA A:489 , THR A:490 , GOL A:620 , HOH A:922 , HOH A:924 , HOH A:1040BINDING SITE FOR RESIDUE GOL A 626
27CC9SOFTWARELYS A:354 , GOL A:624 , HOH A:1083 , HOH A:1230 , HIS B:150BINDING SITE FOR RESIDUE GOL A 627
28DC1SOFTWAREARG A:68 , ACT A:601 , HOH A:1231BINDING SITE FOR RESIDUE GOL A 628
29DC2SOFTWARETYR A:22 , THR A:23 , MET A:27 , TRP A:100 , ARG A:137 , TRP A:398 , TYR A:402 , HIS A:416 , ACT A:607 , HOH A:776 , HOH A:919 , HOH A:1195BINDING SITE FOR RESIDUE L2M A 629
30DC3SOFTWARETHR A:441 , HIS A:442 , ASP A:443 , HOH A:1188BINDING SITE FOR RESIDUE SO4 A 632
31DC4SOFTWAREGLU A:187 , TRP B:54BINDING SITE FOR RESIDUE ACT B 601
32DC5SOFTWARELYS B:52 , ARG B:68 , ASP B:69 , ASP B:70BINDING SITE FOR RESIDUE ACT B 602
33DC6SOFTWAREGOL A:622 , PRO B:225 , LEU B:352 , HOH B:820 , HOH B:968 , HOH B:1063 , HOH B:1131BINDING SITE FOR RESIDUE ACT B 603
34DC7SOFTWARELYS A:335 , HOH A:1209 , ARG B:341 , HOH B:1092BINDING SITE FOR RESIDUE ACT B 604
35DC8SOFTWAREARG A:386 , THR B:456 , ASP B:460 , HOH B:939 , HOH B:1002 , HOH B:1013BINDING SITE FOR RESIDUE ACT B 605
36DC9SOFTWARETRP B:10 , PRO B:11 , ARG B:205 , GLY B:219 , ASN B:220 , HOH B:969BINDING SITE FOR RESIDUE GOL B 606
37EC1SOFTWAREASN A:336 , ACT A:608 , LYS B:330 , ASP B:331 , ILE B:332 , HOH B:1030 , HOH B:1096BINDING SITE FOR RESIDUE GOL B 607
38EC2SOFTWAREASN B:274 , LYS B:275 , LYS B:276 , VAL B:289 , SER B:308 , GLN B:309 , TYR B:310 , HOH B:843BINDING SITE FOR RESIDUE GOL B 608
39EC3SOFTWAREARG A:384 , ARG A:389 , ASP B:427 , LEU B:430 , ARG B:457 , HOH B:1103BINDING SITE FOR RESIDUE GOL B 609
40EC4SOFTWAREGLU B:221 , VAL B:249 , SER B:353 , MET B:356 , PHE B:394 , HIS B:395 , ARG B:396 , HOH B:1020BINDING SITE FOR RESIDUE GOL B 610
41EC5SOFTWARETYR B:22 , MET B:27 , TRP B:100 , ARG B:137 , TRP B:398 , SER B:410 , HIS B:416 , THR B:490 , HOH B:712 , HOH B:781 , HOH B:1004BINDING SITE FOR RESIDUE L2M B 611
42EC6SOFTWARELYS A:321 , ARG B:389 , HOH B:1060BINDING SITE FOR RESIDUE SO4 B 612

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4DCY)

(-) Cis Peptide Bonds  (11, 11)

Asymmetric Unit
No.Residues
1Thr A:23 -Pro A:24
2Arg A:137 -Pro A:138
3Ala A:258 -Pro A:259
4Ala A:400 -Pro A:401
5Asp A:403 -Pro A:404
6Thr B:23 -Pro B:24
7Arg B:137 -Pro B:138
8Ala B:258 -Pro B:259
9Ala B:328 -Gly B:329
10Ala B:400 -Pro B:401
11Asp B:403 -Pro B:404

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4DCY)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SBP_BACTERIAL_5PS01040 Bacterial extracellular solute-binding proteins, family 5 signature.NIKA_ECOLI73-95
 
  2A:51-73
B:51-73
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SBP_BACTERIAL_5PS01040 Bacterial extracellular solute-binding proteins, family 5 signature.NIKA_ECOLI73-95
 
  1A:51-73
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SBP_BACTERIAL_5PS01040 Bacterial extracellular solute-binding proteins, family 5 signature.NIKA_ECOLI73-95
 
  1-
B:51-73

(-) Exons   (0, 0)

(no "Exon" information available for 4DCY)

(-) 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:498
 aligned with NIKA_ECOLI | P33590 from UniProtKB/Swiss-Prot  Length:524

    Alignment length:498
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514        
           NIKA_ECOLI    25 PDEITTAWPVNVGPLNPHLYTPNQMFAQSMVYEPLVKYQADGSVIPWLAKSWTHSEDGKTWTFTLRDDVKFSNGEPFDAEAAAENFRAVLDNRQRHAWLELANQIVDVKALSKTELQITLKSAYYPFLQELALPRPFRFIAPSQFKNHETMNGIKAPIGTGPWILQESKLNQYDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVNKKSLIDNALYGTQQVADTLFAPSVPYANLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREKNGQPLRIELSFIGTDALSKSMAEIIQADMRQIGADVSLIGEEESSIYARQRDGRFGMIFHRTWGAPYDPHAFLSSMRVPSHADFQAQQGLADKPLIDKEIGEVLATHDETQRQALYRDILTRLHDEAVYLPISYISMMVVSKPELGNIPYAPIATEIPFEQIKPV 522
               SCOP domains d4dcya_ A: Nickel-binding periplasmic protein NikA                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee...............hhhhhhhhh...eee.....eee..eeeeee.....eeeeee............hhhhhhhhhhhhhhhhhhhh.hhhhhheeeeee....eeeeee.....hhhhhhh........hhh.ee..eeeeee........eeeeeee...eeeeee............eeeeee..hhhhhhhhhhh....eeee.....hhhhhhhhhh....eeeeeeeeeeeeeee........hhhhhhhhhhhhhhhhhhhhhh....ee.....................hhhhhhhhhhhh...........ee..ee.eeeeeee..hhhhhhhhhhhhhhhhh...eeeeeeehhhhhhhhhhhh...eeeee.......hhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeee.hhhh...........hhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------SBP_BACTERIAL_5        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4dcy A   3 PDEITTAWPVNVGPLNPHLYTPNQMFAQSMVYEPLVKYQADGSVIPWLAKSWTHSEDGKTWTFTLRDDVKFSNGEPFDAEAAAENFRAVLDNRQRHAWLELANQIVDVKALSKTELQITLKSAYYPFLQELALPRPFRFIAPSQFKNHETMNGIKAPIGTGPWILQESKLNQYDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVNKKSLIDNALYGTQQVADTLFAPSVPYANLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREKNGQPLRIELSFIGTDALSKSMAEIIQADMRQIGADVSLIGEEESSIYARQRDGRFGMIFHRTWGAPYDPHAFLSSMRVPSHADFQAQQGLADKPLIDKEIGEVLATHDETQRQALYRDILTRLHDEAVYLPISYISMMVVSKPELGNIPYAPIATEIPFEQIKPV 500
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492        

Chain B from PDB  Type:PROTEIN  Length:498
 aligned with NIKA_ECOLI | P33590 from UniProtKB/Swiss-Prot  Length:524

    Alignment length:498
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514        
           NIKA_ECOLI    25 PDEITTAWPVNVGPLNPHLYTPNQMFAQSMVYEPLVKYQADGSVIPWLAKSWTHSEDGKTWTFTLRDDVKFSNGEPFDAEAAAENFRAVLDNRQRHAWLELANQIVDVKALSKTELQITLKSAYYPFLQELALPRPFRFIAPSQFKNHETMNGIKAPIGTGPWILQESKLNQYDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVNKKSLIDNALYGTQQVADTLFAPSVPYANLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREKNGQPLRIELSFIGTDALSKSMAEIIQADMRQIGADVSLIGEEESSIYARQRDGRFGMIFHRTWGAPYDPHAFLSSMRVPSHADFQAQQGLADKPLIDKEIGEVLATHDETQRQALYRDILTRLHDEAVYLPISYISMMVVSKPELGNIPYAPIATEIPFEQIKPV 522
               SCOP domains d4dcyb_ B: Nickel-binding periplasmic protein NikA                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee...............hhhhhhhhh...eee.....eee..eeeeee.....eeeeee............hhhhhhhhhhhhhhhhhhhh..hhhhheeeeee....eeeeee.....hhhhhhh........hhh.ee..eeeeee........eeeeeee...eeeeee............eeeeee..hhhhhhhhhhh....eeee.....hhhhhhhhhh....eeeeeeeeeeeeeee........hhhhhhhhhhhhhhhhhhhh......ee.....................hhhhhhhhhhhh...........ee..ee.eeeeeee..hhhhhhhhhhhhhhhhh...eeeeeeehhhhhhhhhhhh...eeeee.......hhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeee.hhhh...........hhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------SBP_BACTERIAL_5        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4dcy B   3 PDEITTAWPVNVGPLNPHLYTPNQMFAQSMVYEPLVKYQADGSVIPWLAKSWTHSEDGKTWTFTLRDDVKFSNGEPFDAEAAAENFRAVLDNRQRHAWLELANQIVDVKALSKTELQITLKSAYYPFLQELALPRPFRFIAPSQFKNHETMNGIKAPIGTGPWILQESKLNQYDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQNPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVNKKSLIDNALYGTQQVADTLFAPSVPYANLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREKNGQPLRIELSFIGTDALSKSMAEIIQADMRQIGADVSLIGEEESSIYARQRDGRFGMIFHRTWGAPYDPHAFLSSMRVPSHADFQAQQGLADKPLIDKEIGEVLATHDETQRQALYRDILTRLHDEAVYLPISYISMMVVSKPELGNIPYAPIATEIPFEQIKPV 500
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492        

   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  (1, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4DCY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4DCY)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (NIKA_ECOLI | P33590)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0016151    nickel cation binding    Interacting selectively and non-covalently with nickel (Ni) cations.
    GO:0015197    peptide transporter activity    Enables the directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells.
    GO:0046914    transition metal ion binding    Interacting selectively and non-covalently with a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver.
biological process
    GO:0050919    negative chemotaxis    The directed movement of a motile cell or organism towards a lower concentration of a chemical.
    GO:0015675    nickel cation transport    The directed movement of nickel (Ni) cations into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0015833    peptide transport    The directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0043190    ATP-binding cassette (ABC) transporter complex    A complex for the transport of metabolites into and out of the cell, typically comprised of four domains; two membrane-associated domains and two ATP-binding domains at the intracellular face of the membrane, that form a central pore through the plasma membrane. Each of the four core domains may be encoded as a separate polypeptide or the domains can be fused in any one of a number of ways into multidomain polypeptides. In Bacteria and Archaebacteria, ABC transporters also include substrate binding proteins to bind substrate external to the cytoplasm and deliver it to the transporter.
    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).

 Visualization

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 Related Entries

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

UniProtKB/Swiss-Prot
        NIKA_ECOLI | P335901uiu 1uiv 1zlq 2noo 3dp8 3e3k 3mvw 3mvx 3mvy 3mvz 3mw0 3mz9 3mzb 3qim 4dcx 4i8c 4i9d 5l8d 5mwu

(-) Related Entries Specified in the PDB File

1zlq THE SAME PROTEIN IN COMPLEX WITH FEEDTA(H2O)-