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(-) Description

Title :  CRYSTAL STRUCTURE OF PROTEIN OF UNKNOWN FUNCTION WITH GALECTIN-LIKE FOLD FROM BACILLUS SUBTILIS
 
Authors :  Y. Kim, L. Lezondra, A. Joachimiak, Midwest Center For Structural (Mcsg)
Date :  06 Mar 03  (Deposition) - 23 Sep 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Structural Genomics, Singleton, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, L. Lezondra, A. Joachimiak
Crystal Structure Of The Bacillus Subtilis Hypothetical Protein Apc1120
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PROTEIN YESU
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: HYPOTHETICAL PROTEIN APC1120

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 38)

Asymmetric Unit (3, 38)
No.NameCountTypeFull Name
1ACY4Ligand/IonACETIC ACID
2GOL2Ligand/IonGLYCEROL
3MSE32Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2GOL1Ligand/IonGLYCEROL
3MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 9)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2GOL-1Ligand/IonGLYCEROL
3MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (2, 9)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2GOL-1Ligand/IonGLYCEROL
3MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (3, 10)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2GOL1Ligand/IonGLYCEROL
3MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMSE A:76 , TYR A:101 , ARG A:200 , MSE A:202 , HOH A:1078 , HOH A:1150BINDING SITE FOR RESIDUE ACY A 1001
2AC2SOFTWAREMSE B:76 , TYR B:101 , ARG B:200 , MSE B:202 , HOH B:1109BINDING SITE FOR RESIDUE ACY B 1002
3AC3SOFTWAREMSE C:76 , TYR C:101 , ARG C:200 , MSE C:202 , HOH C:1090BINDING SITE FOR RESIDUE ACY C 1003
4AC4SOFTWAREMSE D:76 , TYR D:101 , ARG D:200 , MSE D:202 , HOH D:1099 , HOH D:1169BINDING SITE FOR RESIDUE ACY D 1004
5AC5SOFTWAREHIS A:41 , GLN A:43 , ASP A:44 , HOH A:1042 , HOH A:1187BINDING SITE FOR RESIDUE GOL A 1005
6AC6SOFTWAREHIS D:41 , GLN D:43 , ASP D:44 , HOH D:1055 , HOH D:1104BINDING SITE FOR RESIDUE GOL D 1006

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1OQ1)

(-) Cis Peptide Bonds  (16, 16)

Asymmetric Unit
No.Residues
1Gln A:71 -Pro A:72
2Ser A:135 -Arg A:136
3Ser A:156 -Pro A:157
4Ala A:203 -Pro A:204
5Gln B:71 -Pro B:72
6Ser B:135 -Arg B:136
7Ser B:156 -Pro B:157
8Ala B:203 -Pro B:204
9Gln C:71 -Pro C:72
10Ser C:135 -Arg C:136
11Ser C:156 -Pro C:157
12Ala C:203 -Pro C:204
13Gln D:71 -Pro D:72
14Ser D:135 -Arg D:136
15Ser D:156 -Pro D:157
16Ala D:203 -Pro D:204

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OQ1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OQ1)

(-) Exons   (0, 0)

(no "Exon" information available for 1OQ1)

(-) 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:223
 aligned with YESU_BACSU | O31524 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:223
                               1                                                                                                                                                                                                                           
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217   
           YESU_BACSU     - ---MYKEGACLYRNPLRSKSDVKDWRMEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCMLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAMGADPLPSPDDADSPYRMKLIKDKGYVHFSINGLPILEWMDDGSTYGPVLTKGKIGFRQMAPMKAVYRDFAVHQAVRR 220
               SCOP domains d1oq1a_ A: Hypothetical protein YesU                                                                                                                                                                                            SCOP domains
               CATH domains 1oq1A00 A:-2-220  [code=2.60.120.200, no name defined]                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeee...hhhhhh..eeee.eeeehhhhheeeee......eeee........eeeeeeeeeee..eeeeeeeeeee.................hhhhhh..eeeeeeeeeee.hhhhhh..eeeeeee...eeeeeee....hhhhh...eeeeeeee..eeeeee..eeeeeee.............eeeeeee...eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oq1 A  -2 SNAmYKEGACLYRNPLRSKSDVKDWRmEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCmLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAmGADPLPSPDDADSPYRmKLIKDKGYVHFSINGLPILEWmDDGSTYGPVLTKGKIGFRQmAPmKAVYRDFAVHQAVRR 220
                               |     7        17      | 27        37        47        57        67        77        87        97       107       117       127       137     | 147       157  |    167       177    |  187       197    |  207       217   
                               |                     24-MSE                                              76-MSE                                                            143-MSE          160-MSE               182-MSE             202-MSE              
                               1-MSE                                                                                                                                                                                                     205-MSE           


Chain B from PDB  Type:PROTEIN  Length:220
 aligned with YESU_BACSU | O31524 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
           YESU_BACSU     1 MYKEGACLYRNPLRSKSDVKDWRMEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCMLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAMGADPLPSPDDADSPYRMKLIKDKGYVHFSINGLPILEWMDDGSTYGPVLTKGKIGFRQMAPMKAVYRDFAVHQAVRR 220
               SCOP domains d1oq1b_ B: Hypothetical protein YesU                                                                                                                                                                                         SCOP domains
               CATH domains -1oq1B00 B:2-220  [code=2.60.120.200, no name defined]                                                                                                                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee...hhhhhh..eeee.eeee.....eeeee......eeee........eeeeeeeeeee..eeeeeeeeeee.................hhhhhh..eeeeeeeeeee.hhhhhh..eeeeeee...eeeeeee....hhhhh...eeeeeeee..eeeeee..eeeeeee.............eeeeeee...eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oq1 B   1 mYKEGACLYRNPLRSKSDVKDWRmEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCmLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAmGADPLPSPDDADSPYRmKLIKDKGYVHFSINGLPILEWmDDGSTYGPVLTKGKIGFRQmAPmKAVYRDFAVHQAVRR 220
                            |       10        20   |    30        40        50        60        70     |  80        90       100       110       120       130       140  |    150       160       170       180 |     190       200 |  |  210       220
                            1-MSE                 24-MSE                                              76-MSE                                                            143-MSE          160-MSE               182-MSE             202-MSE              
                                                                                                                                                                                                                                      205-MSE           


Chain C from PDB  Type:PROTEIN  Length:221
 aligned with YESU_BACSU | O31524 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:221
                             1                                                                                                                                                                                                                           
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219 
           YESU_BACSU     - -MYKEGACLYRNPLRSKSDVKDWRMEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCMLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAMGADPLPSPDDADSPYRMKLIKDKGYVHFSINGLPILEWMDDGSTYGPVLTKGKIGFRQMAPMKAVYRDFAVHQAVRR 220
               SCOP domains d1oq1c_ C: Hypothetical protein YesU                                                                                                                                                                                          SCOP domains
               CATH domains 1oq1C00 C:0-220  [code=2.60.120.200, no name defined]                                                                                                                                                                         CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee...hhhhhh..eeee.eeeehhhhheeeee......eeee........eeeeeeeeeee..eeeeeeeeeee.................hhhhhh..eeeeeeeeeee.hhhhhh..eeeeeee...eeeeeee....hhhhh...eeeeeeee..eeeeee..eeeeeee.............eeeeeee...eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oq1 C   0 AmYKEGACLYRNPLRSKSDVKDWRmEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCmLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAmGADPLPSPDDADSPYRmKLIKDKGYVHFSINGLPILEWmDDGSTYGPVLTKGKIGFRQmAPmKAVYRDFAVHQAVRR 220
                             |       9        19    |   29        39        49        59        69      | 79        89        99       109       119       129       139   |   149       159|      169       179  |    189       199  |  | 209       219 
                             1-MSE                 24-MSE                                              76-MSE                                                            143-MSE          160-MSE               182-MSE             202-MSE              
                                                                                                                                                                                                                                       205-MSE           


Chain D from PDB  Type:PROTEIN  Length:223
 aligned with YESU_BACSU | O31524 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:223
                               1                                                                                                                                                                                                                           
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217   
           YESU_BACSU     - ---MYKEGACLYRNPLRSKSDVKDWRMEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCMLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAMGADPLPSPDDADSPYRMKLIKDKGYVHFSINGLPILEWMDDGSTYGPVLTKGKIGFRQMAPMKAVYRDFAVHQAVRR 220
               SCOP domains d1oq1d_ D: Hypothetical protein YesU                                                                                                                                                                                            SCOP domains
               CATH domains 1oq1D00 D:-2-220  [code=2.60.120.200, no name defined]                                                                                                                                                                          CATH domains
           Pfam domains (1) -----DUF1961-1oq1D01 D:3-214                                                                                                                                                                                             ------ Pfam domains (1)
           Pfam domains (2) -----DUF1961-1oq1D02 D:3-214                                                                                                                                                                                             ------ Pfam domains (2)
           Pfam domains (3) -----DUF1961-1oq1D03 D:3-214                                                                                                                                                                                             ------ Pfam domains (3)
           Pfam domains (4) -----DUF1961-1oq1D04 D:3-214                                                                                                                                                                                             ------ Pfam domains (4)
         Sec.struct. author ....eeeeeeeeee...hhhhhh..eeee.eeeehhhhheeeee......eeee........eeeeeeeeeee..eeeeeeeeeee.................hhhhhh..eeeeeeeeeee.hhhhhh..eeeeeee...eeeeeee....hhhhh...eeeeeeee..eeeeee..eeeeeee.............eeeeeee...eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oq1 D  -2 SNAmYKEGACLYRNPLRSKSDVKDWRmEGGGQISFDDHSLHLSHVQDEAHFVFWCPETFPDGIIVTWDFSPIEQPGLCmLFFAAAGIRGEDLFDPSLRKRTGTYPEYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAmGADPLPSPDDADSPYRmKLIKDKGYVHFSINGLPILEWmDDGSTYGPVLTKGKIGFRQmAPmKAVYRDFAVHQAVRR 220
                               |     7        17      | 27        37        47        57        67        77        87        97       107       117       127       137     | 147       157  |    167       177    |  187       197    |  207       217   
                               1-MSE                 24-MSE                                              76-MSE                                                            143-MSE          160-MSE               182-MSE             202-MSE              
                                                                                                                                                                                                                                         205-MSE
   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, 4)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: no clan defined [family: DUF1961] (1)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1OQ1)

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 Related Entries

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