Conserved Protein Domain Family
ArgRS_core

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cd00671: ArgRS_core 
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catalytic core domain of arginyl-tRNA synthetases
Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine.
Statistics
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PSSM-Id: 185675
View PSSM: cd00671
Aligned: 43 rows
Threshold Bit Score: 193.935
Threshold Setting Gi: 17942832
Created: 24-Sep-2002
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 9 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:2ZUE_A; Pyrococcus horikoshii ArgRS bound to ATP analog and Mg, defined using 4.0 A contacts.
    View structure with Cn3D
  • Structure:1F7U_A; Saccharomyces cerevisiae ArgRS bound to L-arg and tRNA (based on associated journal article).
    View structure with Cn3D
  • Comment:Amino acid activation is tRNA dependent

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1           #  # #     #  #                                                             
1F7U_A      144 KVIIEFSSPNIAKPFHAGHLRSTIIGGFLANLYEKLGWEVIRMNYLGDWGKQFGLLAVGFERygneealvkdpihhlfdv 223
2ZUE_A      120 KVIVEHTSVNPTKPLHMGHARNAILGDVMARILRFLGYEVEVQNYIDDLGIQFAQVYWGYLRlkeeferimnelrerglk 199
gi 2501048  118 RIVVDFSSPNIAKEMHVGHLRSTIIGDCLARVLEFRGYDVLRLNHVGDWGTQFGMLITYLKEvypealvtadaldigdlv 197
gi 3915064  125 KIILEFSSPNTNKPLHVGHLRNDVIGESLSRILKAVGAKITKINLINDRGVHICKSMLAYKKfgngitpekafkkgdhli 204
gi 7674357  115 KIIIDFSSPNIAKDMHVGHLRSTIIGDSLARIFSYVGHDVLRLNHIGDWGTAFGMLITYLQEnpcdysdledltslykka 194
gi 16127589 115 RVLIDYAGPNVAKPMHVGHLRASIIGESVKRLYRFRGDDVVGDAHFGDWGFQMGLLISAIMDedpfinalmeklpeaprg 194
gi 20178140 197 RVLVDFSSPNIAKQMHVGHLRSTIIGESLCRLLEFLQHDVIRINHLGDWGTQFGMLIAHLEDrfpnylnesppisdlqlf 276
gi 20178331 193 KVIVDFSSPNIAKEMHVGHLRSTIIGESISRLFEFAGYDVLRLNHVGDWGTQFGMLIAHLQDkfpdyltvsppigdlqvf 272
gi 21431831 245 RVLVDFSSPNIAKEMHVGHLRSTIIGDSICRLFEAVGFDVLRVNHIGDWGTQFGMLIAHLYDrfpdflkklpdisdlqaf 324
gi 23822190 115 KVIIDFSSPNIAKRMHIGHLRSTIIGESISRIYRFLGYDVVADNHIGDWGTQFGKLIVGYRNwldkkaykknaieelerv 194
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                       
1F7U_A      224 yvrinkdieeeg------------------dsipleqstngkareyfkrmedgdeealkiWKRFREFSIEKYIDTYArln 285
2ZUE_A      200 dnpidhalglly------------------vevnrrlednpeleneirdimkklesgelyGRKLAEEVVRAQMVTTYklg 261
gi 2501048  198 tfykqakqrf-----------------------dqdeqfretsrqavvalqagdaksikaWQLLCEQSRREFQLIYDcld 254
gi 3915064  205 gdfyvkynky----------------------sqenenaekeiqdllllweqkdvstielWKKLNKWAIEGIKETYEitn 262
gi 7674357  195 yvcftnd-----------------------------eefkkrsqqnvvalqakdpqaiaiWEKICETSEKAFQKIYDild 245
gi 16127589 195 fssadeakvmaefekritladldriypaasvrqkedpafkerarkataelqngrfgyrllWRHFVNVSRVALEREFHalg 274
gi 20178140 277 ykeskkrfd-------------------------edeefkkraysrvvslqkgvpnsikaWELICNVSRKEFQTIYErld 331
gi 20178331 273 ykeskkrfd-------------------------teeefkkrayqcvvllqgknpditkaWKLICDVSRQELNKIYDald 327
gi 21431831 325 ykeskkrfd-------------------------edeqfkkrayeyvvklqshdgdivkaWNTICDVSKKYNQIVYNyld 379
gi 23822190 195 yvkfsdeae-------------------------kdpsledlaraelkkvqdgeeentklWKEFITESLKEYNKLYKrld 249
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                               #   #   
1F7U_A      286 ikyDVYSGEsqv-skeSMLKAIDLFkekglt-----hedkgAVLIDLtkfn-----kklGKAIVQKSDGTTLYLTRDVGA 354
2ZUE_A      262 vkyDLLVWEsdivrrkLFEIALELLsknenfyipsdgkyrgAFVMDLrklfp---dmknPILVLRRSDGTATYTGKDIAY 338
gi 2501048  255 -itIEERGEsfy--npFLPGVVELLqekdll-----vedngAQCVFLdgftn--kdgdrLPLIVQKSDGGYNYATTDLAA 324
gi 3915064  263 tsfDKIYLEsei-fkiGKNVVLEGLekgfcy-----kredgAICIDLpsdsdekadtkvKQKVLIRSNGTSIYLTQDLGN 336
gi 7674357  246 -ivVEKRGEsfy--npFLPEIIEDLekkgll-----tvsndAKCVFHea--------fsIPFMVQKSDGGYNYATTDLAA 309
gi 16127589 275 vdfDLWKGEsdv--ndLIEPMVLQLeakgll-----vqdqgARIVRVaregd---krdvPPLLVVSSEGSAMYGTTDLAT 344
gi 20178140 332 -isVKERGEsfy--qsRMLSVVEYLrgkgll-----evdegREIMWPddt------ktgIPLTIVKSDGGFTYDTSDMAA 397
gi 20178331 328 -vsLIERGEsfy--qdRMNDIVKEFedrgfv-----qvddgRKIVFVpg--------csIPLTIVKSDGGYTYDTSDLAA 391
gi 21431831 380 -ikIKDVGEsfy--qdKMIELVKWVktnkpdm---lreedgRQIMFPtg--------cdIPLTVVKSDGGFTYDTSDLAA 445
gi 23822190 250 vhfDTYYGEsfy--ndMMADVVKELvdkkia-----vdddgAKVVFFdek------dnlFPCIVQKKDGAYLYSTSDIAT 316
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                       #  #                            
1F7U_A      355 AMDRYek----------------------------yHFDKMIYVIASQQDLHAAQFFEILKQMgfe--wakDLQHVNFGM 404
2ZUE_A      339 HLWKFgkidvdllykewdsttwttapdgksmpnkfgNANIVINVIGAEQKHPQLAIKYALQLLgfed-aaaNLYHLAYEH 417
gi 2501048  325 LNYRLnt----------------------------dGAEKIIYVTDAGQANHFAQFFQVAEKAgilt-dptQVVHVPFGL 375
gi 3915064  337 IAVRTke----------------------------fNFEEMIYVVGSEQIQHFKSLFFVAEKLgls--knkKLIHLSHGM 386
gi 7674357  310 MRYRIee----------------------------dHADKIIIVTDLGQSLHFQLLEATAIAAgyl--qpgIFSHVGFGL 359
gi 16127589 345 ILDRRks----------------------------fDPHLILYCVDQRQADHFETVFRAAYLAgya--eegALEHIGFGT 394
gi 20178140 398 IRHRLee----------------------------eLCDWIIYVVDSGQSTHFNTIFKAAERSailnplshRVDHVQFGV 449
gi 20178331 392 IKQRLfe----------------------------eKADMIIYVVDNGQSVHFQTIFAAAQMIgwydpkvtRVFHAGFGV 443
gi 21431831 446 LKYRMle----------------------------eKCDWNIYVVDSGQSLHLETVYAAGRDFgwydesiqRVEHVAFGL 497
gi 23822190 317 VKFRKnt----------------------------yDVNRMIYLTDARQQDHFKQFFKITDMLgw----niEKYHIWFGI 364
                       330
                ....*....|....
Feature 1                     
1F7U_A      405 VQ-----GMSTRKG 413
2ZUE_A      418 VErp-egKFSGRKG 430
gi 2501048  376 VKgedgkKLKTRAG 389
gi 3915064  387 VNlv-dgKMKSREG 399
gi 7674357  360 VLdpqgkKLKTRSG 373
gi 16127589 395 MNgadgkPFKTRAG 408
gi 20178140 450 VLgedgkKFKTRSG 463
gi 20178331 444 VLgedkkKFKTRSG 457
gi 21431831 498 VLgddkkKFKTRSG 511
gi 23822190 365 IRfa-dgILSTRKG 377

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