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(-) Description

Title :  2.7 ANGSTROM CRYSTAL STRUCTURE OF GLYCEROL KINASE (GLPK) FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH ADP AND GLYCEROL
 
Authors :  G. Minasov, J. Brunzelle, T. Skarina, O. Onopriyenko, S. N. Peterson, A. Savchenko, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
Date :  24 Feb 09  (Deposition) - 24 Mar 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Glycerol Kinase, Glycerol, Adp, Idp00743, Atp-Binding, Glycerol Metabolism, Kinase, Nucleotide-Binding, Transferase, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Minasov, J. Brunzelle, T. Skarina, O. Onopriyenko, S. N. Peterson, A. Savchenko, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
2. 7 Angstrom Crystal Structure Of Glycerol Kinase (Glpk) From Staphylococcus Aureus In Complex With Adp And Glycerol
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GLYCEROL KINASE
    Chains: A, B, C, D
    EC Number: 2.7.1.30
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21-DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GLPK, SACOL1320
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS COL
    Organism Taxid: 93062
    Strain: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS COL

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 63)

Asymmetric/Biological Unit (5, 63)
No.NameCountTypeFull Name
1ADP4Ligand/IonADENOSINE-5'-DIPHOSPHATE
2CL4Ligand/IonCHLORIDE ION
3GOL4Ligand/IonGLYCEROL
4MSE43Mod. Amino AcidSELENOMETHIONINE
5PO48Ligand/IonPHOSPHATE ION

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:11 , THR A:12 , THR A:13 , ARG A:16 , GLY A:265 , THR A:266 , GLY A:309 , SER A:310 , ILE A:312 , GLN A:313 , ALA A:325 , PRO A:326 , GLY A:410 , ASN A:414 , HOH A:535 , HOH A:566 , HOH A:567BINDING SITE FOR RESIDUE ADP A 499
02AC2SOFTWAREARG A:82 , GLU A:83 , TRP A:102 , TYR A:134 , ASP A:244 , GLN A:245 , PHE A:269BINDING SITE FOR RESIDUE GOL A 500
03AC3SOFTWAREARG A:320 , TYR B:331 , LYS B:372BINDING SITE FOR RESIDUE PO4 A 501
04AC4SOFTWARETYR A:331 , LYS A:372 , ARG B:320BINDING SITE FOR RESIDUE PO4 A 502
05AC5SOFTWARELYS A:171 , GLY A:174 , LYS A:175 , TYR A:229 , HIS A:230BINDING SITE FOR RESIDUE PO4 A 503
06AC6SOFTWARESER A:337 , THR A:338 , GLU A:381BINDING SITE FOR RESIDUE CL A 504
07AC7SOFTWAREGLY B:11 , THR B:12 , THR B:13 , ARG B:16 , GLY B:265 , THR B:266 , GLY B:309 , SER B:310 , ILE B:312 , GLN B:313 , ALA B:325 , PRO B:326 , GLY B:410 , ALA B:411 , LYS B:413 , ASN B:414 , HOH B:519BINDING SITE FOR RESIDUE ADP B 499
08AC8SOFTWAREARG B:82 , GLU B:83 , TRP B:102 , TYR B:134 , ASP B:244 , GLN B:245 , PHE B:269BINDING SITE FOR RESIDUE GOL B 500
09AC9SOFTWARELYS B:171 , GLY B:174 , LYS B:175 , ILE B:227 , TYR B:229 , HIS B:230BINDING SITE FOR RESIDUE PO4 B 501
10BC1SOFTWARESER B:337 , THR B:338 , GLU B:381BINDING SITE FOR RESIDUE CL B 502
11BC2SOFTWAREGLY C:11 , THR C:12 , THR C:13 , ARG C:16 , GLY C:265 , THR C:266 , GLY C:309 , ILE C:312 , GLN C:313 , ALA C:325 , PRO C:326 , GLY C:410 , ALA C:411 , ASN C:414 , GOL C:500 , HOH C:510BINDING SITE FOR RESIDUE ADP C 499
12BC3SOFTWAREGLN C:81 , ARG C:82 , GLU C:83 , TRP C:102 , TYR C:134 , ASP C:244 , GLN C:245 , PHE C:269 , ADP C:499BINDING SITE FOR RESIDUE GOL C 500
13BC4SOFTWARELYS C:171 , GLY C:174 , LYS C:175 , ILE C:227 , TYR C:229 , HIS C:230 , HOH C:547BINDING SITE FOR RESIDUE PO4 C 501
14BC5SOFTWARESER C:337 , THR C:338 , GLU C:381BINDING SITE FOR RESIDUE CL C 502
15BC6SOFTWAREGLY D:11 , THR D:12 , ARG D:16 , GLY D:265 , THR D:266 , GLY D:309 , SER D:310 , ILE D:312 , ALA D:325 , PRO D:326 , GLY D:410 , ALA D:411 , LYS D:413 , ASN D:414 , HOH D:545BINDING SITE FOR RESIDUE ADP D 499
16BC7SOFTWAREGLN D:81 , ARG D:82 , GLU D:83 , TRP D:102 , TYR D:134 , ASP D:244 , GLN D:245 , PHE D:269BINDING SITE FOR RESIDUE GOL D 500
17BC8SOFTWAREARG C:320 , TYR D:331 , LYS D:372BINDING SITE FOR RESIDUE PO4 D 501
18BC9SOFTWARETYR C:331 , LYS C:372 , ARG D:320BINDING SITE FOR RESIDUE PO4 D 502
19CC1SOFTWARELYS D:171 , GLY D:174 , LYS D:175 , ILE D:227 , TYR D:229 , HIS D:230 , HOH D:506BINDING SITE FOR RESIDUE PO4 D 503
20CC2SOFTWARESER D:337 , THR D:338 , ARG D:377 , GLU D:381BINDING SITE FOR RESIDUE CL D 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GE1)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Thr A:352 -Pro A:353
2Thr B:352 -Pro B:353
3Thr C:352 -Pro C:353
4Thr D:352 -Pro D:353

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3GE1)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FGGY_KINASES_2PS00445 FGGY family of carbohydrate kinases signature 2.GLPK_STAAC361-381
 
 
 		  4A:361-381
B:361-381
C:361-381
D:361-381

(-) Exons   (0, 0)

(no "Exon" information available for 3GE1)

(-) Sequences/Alignments

Asymmetric/Biological 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:499
 aligned with GLPK_STAAC | Q5HGD2 from UniProtKB/Swiss-Prot  Length:498

    Alignment length:499
                             1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489         
           GLPK_STAAC     - -MEKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVMTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLMFNIHDLEWDDELLELLTVPKNMLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFMLMNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRMINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVMEAMSKDSGIDVQSLRVDGGAVKNNFIMQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKMDEGEREKLYRGWKKAVEATQVFKTE 498
               SCOP domains d3ge1a1 A:0-252 automated matches                                                                                                                                                                                                                            d3ge1a2 A:253-498 automated matches                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee...eeeeeee.....eeeeeeee...........eehhhhhhhhhhhhhhhhhhh...hhh.eeeeeeee....eeeee.........ee......hhhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhh...eeeeehhhhhhhhhh.....eeehhhhh....ee....eehhhhhhhh........eee..eeeeee.hhhhh.....eeeeeeehhhhhhhhh......eeeeee...eeeeee............eeeeeeee..eeeeeeeeee..hhhhhhhhhhh.......hhhhhhhh........eee................eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeehhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhh......hhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FGGY_KINASES_2       --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ge1 A   0 AmEKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVmTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLmFNIHDLEWDDELLELLTVPKNmLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFmLmNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRmINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVmEAmSKDSGIDVQSLRVDGGAVKNNFImQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKmDEGEREKLYRGWKKAVEATQVFKTE 498
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189|      199       209  |    219       229       239       249       259       269| |    279       289       299       309       319 |     329       339       349       359       369       379       389 |  |  399       409       419       429       439       449       459       469   |   479       489         
                             |                                                        59-MSE                                                                                                                            190-MSE               212-MSE                                                   270-MSE                                            321-MSE                                                               391-MSE                    418-MSE                                                473-MSE                     
                             1-MSE                                                                                                                                                                                                                                                                        272-MSE                                                                                                                   394-MSE                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:498
 aligned with GLPK_STAAC | Q5HGD2 from UniProtKB/Swiss-Prot  Length:498

    Alignment length:498
                             1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489        
           GLPK_STAAC     - -MEKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVMTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLMFNIHDLEWDDELLELLTVPKNMLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFMLMNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRMINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVMEAMSKDSGIDVQSLRVDGGAVKNNFIMQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKMDEGEREKLYRGWKKAVEATQVFKT 497
               SCOP domains d3ge1b1 B:0-252 automated matches                                                                                                                                                                                                                            d3ge1b2 B:253-497 automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee...eeeeeee.....eeeeeeee...........eehhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee....eeeee.........ee......hhhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhh..eeeeehhhhhhhhhh.....eeehhhhh....ee....eehhhhhhhh..hhhhh.eee......ee.hhhhh.....eeeeeeehhhhhhhhh.......eeeee...eeeeee............eeeeeeee..eeeeeeeeee...hhhhhhhhhh.......hhhhhhhh........eee................eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeehhhhhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhh.....hhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FGGY_KINASES_2       -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3ge1 B   0 AmEKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVmTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLmFNIHDLEWDDELLELLTVPKNmLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFmLmNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRmINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVmEAmSKDSGIDVQSLRVDGGAVKNNFImQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKmDEGEREKLYRGWKKAVEATQVFKT 497
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189|      199       209  |    219       229       239       249       259       269| |    279       289       299       309       319 |     329       339       349       359       369       379       389 |  |  399       409       419       429       439       449       459       469   |   479       489        
                             1-MSE                                                    59-MSE                                                                                                                            190-MSE               212-MSE                                                   270-MSE                                            321-MSE                                                               391-MSE                    418-MSE                                                473-MSE                    
                                                                                                                                                                                                                                                                                                          272-MSE                                                                                                                   394-MSE                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:497
 aligned with GLPK_STAAC | Q5HGD2 from UniProtKB/Swiss-Prot  Length:498

    Alignment length:497
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       
           GLPK_STAAC     1 MEKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVMTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLMFNIHDLEWDDELLELLTVPKNMLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFMLMNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRMINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVMEAMSKDSGIDVQSLRVDGGAVKNNFIMQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKMDEGEREKLYRGWKKAVEATQVFKT 497
               SCOP domains d3ge1c1 C:1-252 automated matches                                                                                                                                                                                                                           d3ge1c2 C:253-497 automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee...eeeeeee.....eeeeeeee...........eehhhhhhhhhhhhhhhhhhh...hhh.eeeeeeee....eeeee.........ee......hhhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhh...eeeeehhhhhhhhhh.....eeehhhhh....ee....eehhhhhhhh........eee......ee.hhhhh.....eeeeeeehhhhhhhh.......eeeeee...eeeeee............eeeeeeee..eeeeeeeeee..hhhhhhhhhhh.....hhhhhhhhhh........eeee...............eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeehhhhhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhh.....hhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FGGY_KINASES_2       -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ge1 C   1 mEKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVmTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLmFNIHDLEWDDELLELLTVPKNmLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFmLmNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRmINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVmEAmSKDSGIDVQSLRVDGGAVKNNFImQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKmDEGEREKLYRGWKKAVEATQVFKT 497
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210 |     220       230       240       250       260       270 |     280       290       300       310       320|      330       340       350       360       370       380       390|  |   400       410       420       430       440       450       460       470  |    480       490       
                            1-MSE                                                    59-MSE                                                                                                                            190-MSE               212-MSE                                                   270-MSE                                            321-MSE                                                               391-MSE                    418-MSE                                                473-MSE                    
                                                                                                                                                                                                                                                                                                         272-MSE                                                                                                                   394-MSE                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:496
 aligned with GLPK_STAAC | Q5HGD2 from UniProtKB/Swiss-Prot  Length:498

    Alignment length:496
                                    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       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491      
           GLPK_STAAC     2 EKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVMTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLMFNIHDLEWDDELLELLTVPKNMLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFMLMNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRMINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVMEAMSKDSGIDVQSLRVDGGAVKNNFIMQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKMDEGEREKLYRGWKKAVEATQVFKT 497
               SCOP domains d3ge1d1 D:2-252 automated matches                                                                                                                                                                                                                          d3ge1d2 D:253-497 automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...eeeeeee.....eeeeeeee...........eehhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee....eeeee.........ee......hhhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhh..eeeeehhhhhhhhhh.....eeehhhhh....ee....eehhhhhhhh........eee......ee.hhhhh.....eeeeeeehhhhhhhhh.......eeeee...eeeeee............eeeeeeee..eeeeeeeeee...hhhhhhhhhh.......hhhhhhhh........eee................eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhh.....hhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FGGY_KINASES_2       -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ge1 D   2 EKYILSIDQGTTSSRAILFNQKGEIAGVAQREFKQYFPQSGWVEHDANEIWTSVLAVmTEVINENDVRADQIAGIGITNQRETTVVWDKHTGRPIYHAIVWQSRQTQSICSELKQQGYEQTFRDKTGLLLDPYFAGTKVKWILDNVEGAREKAENGDLLFGTIDTWLVWKLSGKAAHITDYSNASRTLmFNIHDLEWDDELLELLTVPKNmLPEVKASSEVYGKTIDYHFYGQEVPIAGVAGDQQAALFGQACFERGDVKNTYGTGGFmLmNTGDKAVKSESGLLTTIAYGIDGKVNYALEGSIFVSGSAIQWLRDGLRmINSAPQSESYATRVDSTEGVYVVPAFVGLGTPYWDSEARGAIFGLTRGTEKEHFIRATLESLCYQTRDVmEAmSKDSGIDVQSLRVDGGAVKNNFImQFQADIVNTSVERPEIQETTALGAAFLAGLAVGFWESKDDIAKNWKLEEKFDPKmDEGEREKLYRGWKKAVEATQVFKT 497
                                    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       291       301       311       321       331       341       351       361       371       381       391  |    401       411      |421       431       441       451       461       471 |     481       491      
                                                                                    59-MSE                                                                                                                            190-MSE               212-MSE                                                   270-MSE                                            321-MSE                                                               391-MSE                    418-MSE                                                473-MSE                    
                                                                                                                                                                                                                                                                                                        272-MSE                                                                                                                   394-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, 8)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3GE1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3GE1)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (GLPK_STAAC | Q5HGD2)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0004370    glycerol kinase activity    Catalysis of the reaction: ATP + glycerol = sn-glycerol 3-phosphate + ADP + 2 H(+).
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016773    phosphotransferase activity, alcohol group as acceptor    Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to an alcohol group (acceptor).
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0019563    glycerol catabolic process    The chemical reactions and pathways resulting in the breakdown of glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids.
    GO:0006071    glycerol metabolic process    The chemical reactions and pathways involving glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids.
    GO:0006072    glycerol-3-phosphate metabolic process    The chemical reactions and pathways involving glycerol-3-phosphate, a phosphoric monoester of glycerol.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

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 Related Entries

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        GLPK_STAAC | Q5HGD2: 3g25

(-) Related Entries Specified in the PDB File

3g25 THE STRUCTURE OF GLYCEROL KINASE (GLPK) IN COMPLEX WITH GLYCEROL RELATED ID: IDP00743 RELATED DB: TARGETDB