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Title :   CRYSTAL STRUCTURE OF A PUTATIVE ICLR TRANSCRIPTIONAL REGULATOR (TM1040_3717) FROM SILICIBACTER SP. TM1040 AT 2.46 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   17 Mar 11 (Deposition) - 13 Apr 11 (Release) - 13 Apr 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.46

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Dna/Rna-Binding 3-Helical Bundle, Profilin-Like, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Putative Iclr Transcriptional Regulator (Tm1040_3717) From Silicibacter Sp. Tm1040 At 2. 4 A Resolution
To Be Published
PubMed: search

Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR, ICLR FAMILY
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	TM1040_3717
	Organism Scientific	:	RUEGERIA SP. TM1040
	Organism Taxid	:	292414

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 28)

Asymmetric Unit (2, 28)

No.	Name	Count	Type	Full Name
1	EDO	5	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	23	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 13)

No.	Name	Count	Type	Full Name
1	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	11	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 15)

No.	Name	Count	Type	Full Name
1	EDO	3	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR B:135 , SER B:137 , SER B:197	BINDING SITE FOR RESIDUE EDO B 301
2	AC2	SOFTWARE	LEU A:66 , ARG B:72	BINDING SITE FOR RESIDUE EDO B 303
3	AC3	SOFTWARE	THR C:135 , ALA C:136 , SER C:137 , SER C:197	BINDING SITE FOR RESIDUE EDO C 300
4	AC4	SOFTWARE	SER C:5 , THR C:9 , HOH C:515 , HOH D:552	BINDING SITE FOR RESIDUE EDO C 302
5	AC5	SOFTWARE	THR C:93 , GLY C:94 , GLU C:95 , ARG C:117 , ASN C:118 , ARG C:221 , GLN C:226	BINDING SITE FOR RESIDUE EDO C 304

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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:255
 aligned with Q1GKY2_RUEST | Q1GKY2 from UniProtKB/TrEMBL  Length:259

    Alignment length:255
                                    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     
         Q1GKY2_RUEST     1 MGTVSKALTLLTYFNHGRLEIGLSDLTRLSGMNKATVYRLMSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVMMEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRMTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.......eeehhhhhhhhh.hhhhhhhhhhhhhhh..eeee....eeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee......eee.....eee....hhhhhhhhh..hhhhhhhhhhh...........hhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r4k A   1 mGTVSKALTLLTYFNHGRLEIGLSDLTRLSGmNKATVYRLmSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVmmEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRmTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
                            |       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     
                            |                             32-MSE   41-MSE                                                                           123-MSE                                                                                            222-MSE                             
                            1-MSE                                                                                                                    124-MSE

Chain B from PDB  Type:PROTEIN  Length:254
 aligned with Q1GKY2_RUEST | Q1GKY2 from UniProtKB/TrEMBL  Length:259

    Alignment length:254
                                    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    
         Q1GKY2_RUEST     2 GTVSKALTLLTYFNHGRLEIGLSDLTRLSGMNKATVYRLMSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVMMEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRMTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhhhh..eee......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee......eee.....eee....hhhhhhhhhh.hhhhhhhhhhh...........hhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r4k B   2 GTVSKALTLLTYFNHGRLEIGLSDLTRLSGmNKATVYRLmSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVmmEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRmTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
                                    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    
                                                         32-MSE   41-MSE                                                                           123-MSE                                                                                            222-MSE                             
                                                                                                                                                    124-MSE

Chain C from PDB  Type:PROTEIN  Length:255
 aligned with Q1GKY2_RUEST | Q1GKY2 from UniProtKB/TrEMBL  Length:259

    Alignment length:255
                                    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     
         Q1GKY2_RUEST     1 MGTVSKALTLLTYFNHGRLEIGLSDLTRLSGMNKATVYRLMSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVMMEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRMTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhhhh..eee......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee......eee.....eee....hhhhhhhhh..hhhhhhhhhhh...........hhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r4k C   1 mGTVSKALTLLTYFNHGRLEIGLSDLTRLSGmNKATVYRLmSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVmmEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRmTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
                            |       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     
                            1-MSE                         32-MSE   41-MSE                                                                           123-MSE                                                                                            222-MSE                             
                                                                                                                                                     124-MSE

Chain D from PDB  Type:PROTEIN  Length:253
 aligned with Q1GKY2_RUEST | Q1GKY2 from UniProtKB/TrEMBL  Length:259

    Alignment length:255
                                    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     
         Q1GKY2_RUEST     1 MGTVSKALTLLTYFNHGRLEIGLSDLTRLSGMNKATVYRLMSELQEAGFVEQVEGARSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVMMEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRMTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.......eehhhhhhhhhh.hhhhhhhhhhhhhhh..eee..--..eee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee......eee.....eee....hhhhhhhhh..hhhhhhhhhhh...........hhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r4k D   1 mGTVSKALTLLTYFNHGRLEIGLSDLTRLSGmNKATVYRLmSELQEAGFVEQVE--RSYRLGPQVLRLAALREASVPILSASRRVLRELSEDTGETTHLSLLQGEQLASLSHAYSSRNATKVmmEDAEVLTFHGTASGLAVLAYSEPSFVDAVLAAPLTARTPQTQTDPAAIRAEIAEVRRTGLAQSIGGFEAEVHSHAVPIFGPDRAVLGALAVAAPTSRmTPDQKRTIPPALRAAGLSLTERIGGACPPEFPT 255
                            |       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     
                            1-MSE                         32-MSE   41-MSE       54 57                                                               123-MSE                                                                                            222-MSE                             
                                                                                                                                                     124-MSE

Legend:		→ Mismatch	(orange background)
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	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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (3, 3)

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Description