RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2377
(340 letters)
>4g6z_A Glutamate-tRNA ligase; aminoacyl-tRNA synthetase, AARS, class 1B
AARS, ATP-dependen charging, protein synthesis,
structural genomics; HET: GLU; 2.05A {Burkholderia
thailandensis}
Length = 490
Score = 581 bits (1499), Expect = 0.0
Identities = 190/338 (56%), Positives = 245/338 (72%), Gaps = 1/338 (0%)
Query: 1 MTIVRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIID 60
VRTRFAPSPTG +H+G IR+AL+ WA+AR G F+LRIEDTD+ RS+ A I++
Sbjct: 23 TRPVRTRFAPSPTGFIHLGNIRSALYPWAFARKMKGTFVLRIEDTDVERSSQEAVDAILE 82
Query: 61 GMKWLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGEKP 120
GM WLGL+YDEGP+YQ +R++RY E++ + Y CY S EE+++ R++QR+ GEKP
Sbjct: 83 GMAWLGLDYDEGPYYQMQRMDRYREVLAQMQEKGLVYPCYMSTEELDALRERQRAAGEKP 142
Query: 121 RYNRIWRPEPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKELDDLVIVRA 180
RY+ WRPEPGK+LP P PV+RF+NPL G + W+D +KG++ ISN+ELDDLV+ R
Sbjct: 143 RYDGTWRPEPGKVLPEPPAGVAPVLRFRNPLTGTVAWDDAVKGRVEISNEELDDLVVARP 202
Query: 181 DGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHLPMVIDSNK 240
DG P YNFC +DD DM ITHVIRGDDH+NNTPRQINIL+ALG +P Y HLP V++
Sbjct: 203 DGTPMYNFCVVVDDLDMGITHVIRGDDHVNNTPRQINILRALGGEVPVYAHLPTVLNEQG 262
Query: 241 VKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNEEIFSIKQFCYWFNDCKYLSKS 300
K+SKR A +M Y+ G+LPEA+LNYLARLGWSHG+ EIF+ +QF WF D ++L KS
Sbjct: 263 EKMSKRHGAMSVMGYRDAGYLPEAVLNYLARLGWSHGDAEIFTREQFVEWF-DLEHLGKS 321
Query: 301 PAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKY 338
PAQ++ KL WLNN YIK DD +L L +P
Sbjct: 322 PAQYDHNKLNWLNNHYIKEADDARLAGLAKPFFAALGI 359
>2cfo_A Glutamyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase,
ATP-binding, nucleotide-B; HET: GLU; 2.45A
{Synechococcus elongatus}
Length = 492
Score = 554 bits (1430), Expect = 0.0
Identities = 147/344 (42%), Positives = 209/344 (60%), Gaps = 10/344 (2%)
Query: 4 VRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGMK 63
VR R APSPTGNLHIG RTA+F+W YARH G FILRIEDTD RS T+ I++G++
Sbjct: 2 VRVRLAPSPTGNLHIGTARTAVFNWLYARHRGGKFILRIEDTDRERSRPEYTENILEGLQ 61
Query: 64 WLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGEKPRYN 123
WLGL +DEGP++Q+ R++ Y + I LL AYYCY + EE+E+ R +Q++ G+ PRY+
Sbjct: 62 WLGLTWDEGPYFQSDRLDLYRQAIQTLLDKGLAYYCYCTPEELEALRAEQKAKGQAPRYD 121
Query: 124 RIWRP-EPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKEL-DDLVIVRAD 181
R P + R PVIRFK I W DL++G+++ +L D+VI RA
Sbjct: 122 NRHRHLTPEEQAAFEAAGRTPVIRFKIEDDRQIEWQDLVRGRVSWQGADLGGDMVIARAA 181
Query: 182 -----GIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHLPMVI 236
G P YN +DD M IT VIRG+DHI NTP+QI + +ALG T P + H P+++
Sbjct: 182 PRGEIGYPLYNLVVVVDDIAMGITDVIRGEDHIGNTPKQILLYEALGATPPNFAHTPLIL 241
Query: 237 DSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWS--HGNEEIFSIKQFCYWFNDC 294
+S K+SKR T I ++ G+L A+ NY+ LGWS G E+F++ F
Sbjct: 242 NSTGQKLSKRDGVTSISDFRAMGYLAPALANYMTLLGWSPPEGVGELFTLDLAAKHF-SF 300
Query: 295 KYLSKSPAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKY 338
+ ++K+ A+F+ KL WLN YI+ + ++ L + P+ + Y
Sbjct: 301 ERINKAGARFDWDKLNWLNRQYIQQLEPEEFLAELIPLWQGAGY 344
>2o5r_A Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, glutamate-T ligase
1, glurs 1, structural genomics, joint center for ST
genomics, JCSG; 2.34A {Thermotoga maritima}
Length = 481
Score = 547 bits (1412), Expect = 0.0
Identities = 136/350 (38%), Positives = 208/350 (59%), Gaps = 14/350 (4%)
Query: 1 MTIVRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIID 60
+VR RFAPSPTG LH+GG RTALF++ +AR G FILRIEDTD+ RS + +++
Sbjct: 11 HHMVRVRFAPSPTGFLHVGGARTALFNFLFARKEKGKFILRIEDTDLERSEREYEEKLME 70
Query: 61 GMKWLGLNYDEG--------PFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKK 112
++WLGL +DEG P+ Q++R+ Y E L+ AYY Y+ EEIE R+K
Sbjct: 71 SLRWLGLLWDEGPDVGGDHGPYRQSERVEIYREHAERLVKEGKAYYVYAYPEEIEEMREK 130
Query: 113 QRSFGEKPRYNRIWRPE---PGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISN 169
S G+ P Y++ + P + +P + FK P ND++KG++
Sbjct: 131 LLSEGKAPHYSQEMFEKFDTPERRREYEEKGLRPAVFFKMPRKD-YVLNDVVKGEVVFKT 189
Query: 170 KELDDLVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFY 229
+ D VI+R++G+PTYNF +DD M+ITHVIRGDDH++NT RQ+ + +A P +
Sbjct: 190 GAIGDFVIMRSNGLPTYNFACVVDDMLMEITHVIRGDDHLSNTLRQLALYEAFEKAPPVF 249
Query: 230 GHLPMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNE-EIFSIKQFC 288
H+ ++ + K+SKR AT + ++ G+LPEA++NYLA LGWSH E+ ++++
Sbjct: 250 AHVSTILGPDGKKLSKRHGATSVEAFRDMGYLPEALVNYLALLGWSHPEGKELLTLEELI 309
Query: 289 YWFNDCKYLSKSPAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKY 338
F LS +PA F+ +KL+W+N +Y+++ +KL L +P +K
Sbjct: 310 SSF-SLDRLSPNPAIFDPQKLKWMNGYYLRNMPIEKLAELAKPFFEKAGI 358
>2ja2_A Glutamyl-tRNA synthetase; non-discriminating glutamyl-tRNA
aminoacylation, protein biosynthesis, aminoacyl-tRNA
synthetase, ligase; 1.65A {Mycobacterium tuberculosis}
PDB: 3pny_A 3pnv_A
Length = 498
Score = 525 bits (1355), Expect = 0.0
Identities = 124/350 (35%), Positives = 198/350 (56%), Gaps = 18/350 (5%)
Query: 4 VRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGMK 63
VR RF PSPTG H+G +RTALF+WAYARH G F+ RIEDTD R + + ++D ++
Sbjct: 7 VRVRFCPSPTGTPHVGLVRTALFNWAYARHTGGTFVFRIEDTDAQRDSEESYLALLDALR 66
Query: 64 WLGLNYDE--------GPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRS 115
WLGL++DE GP+ Q++R Y +++ LL+ AY+ +S+ EE+E+ R
Sbjct: 67 WLGLDWDEGPEVGGPYGPYRQSQRAEIYRDVLARLLAAGEAYHAFSTPEEVEA-RHVAAG 125
Query: 116 FGEKPRYNRIWRP-EPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKELDD 174
K Y+ R + + R+PV+R + P ++ WNDL++G +T + + D
Sbjct: 126 RNPKLGYDNFDRHLTDAQRAAYLAEGRQPVVRLRMPD-DDLAWNDLVRGPVTFAAGSVPD 184
Query: 175 LVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKAL-----GVTLPFY 229
+ RA G P Y DD MKITHV+RG+D + +TPRQ+ + +AL +P +
Sbjct: 185 FALTRASGDPLYTLVNPCDDALMKITHVLRGEDLLPSTPRQLALHQALIRIGVAERIPKF 244
Query: 230 GHLPMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNE-EIFSIKQFC 288
HLP V+ K+SKR +++ ++ +GF+PE +LNYLA LGWS ++ ++F + +
Sbjct: 245 AHLPTVLGEGTKKLSKRDPQSNLFAHRDRGFIPEGLLNYLALLGWSIADDHDLFGLDEMV 304
Query: 289 YWFNDCKYLSKSPAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKY 338
F D ++ SPA+F+ KK + LN +I+ D ++ + +
Sbjct: 305 AAF-DVADVNSSPARFDQKKADALNAEHIRMLDVGDFTVRLRDHLDTHGH 353
>3afh_A Glutamyl-tRNA synthetase 2; protein-substrate complex,
aminoacyl-tRNA synthetase, ATP-binding, ligase,
nucleotide-binding; HET: GSU; 2.00A {Thermotoga
maritima} PDB: 3akz_B*
Length = 488
Score = 524 bits (1351), Expect = 0.0
Identities = 126/348 (36%), Positives = 197/348 (56%), Gaps = 26/348 (7%)
Query: 1 MTIVRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIID 60
+VR RFAPSPTG+LH+GG RTALF+W +AR G FILRIEDTD RS+ Q I++
Sbjct: 23 FELVRVRFAPSPTGHLHVGGARTALFNWMFARKEGGKFILRIEDTDTERSSREYEQQILE 82
Query: 61 GMKWLGLNYDEG--------PFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKK 112
++W GL++DEG P+ Q++R+ Y E L+ + AYY E+ ++
Sbjct: 83 SLRWCGLDWDEGPDIGGDFGPYRQSERLEIYREYAEKLVEDKRAYYVVYDKEDPS--KEL 140
Query: 113 QRSFGEKPRYNRIWRPEPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKEL 172
++ Y P I+FK G ++ DL+KG + N L
Sbjct: 141 FTTYEYPHEYKEKGHP--------------VTIKFKVLP-GKTSFEDLLKGYMEFDNSTL 185
Query: 173 DDLVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHL 232
+D +I++++G PTYNF +DD M+I+HV RG+DH++NTP+Q+ I +A G P + H+
Sbjct: 186 EDFIIMKSNGFPTYNFAVVVDDHLMRISHVFRGEDHLSNTPKQLMIYEAFGWEAPVFMHI 245
Query: 233 PMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNEEIFSIKQFCYWFN 292
P+++ S++ +SKR AT + +++++G L A++NYLA LGW +EIF+I++ F
Sbjct: 246 PLILGSDRTPLSKRHGATSVEHFRREGILSRALMNYLALLGWRVEGDEIFTIEEKLQSF- 304
Query: 293 DCKYLSKSPAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKYRI 340
D K +S F+ +KLEW+N +++ D + L K I
Sbjct: 305 DPKDISNKGVIFDYQKLEWVNGKHMRRIDLEDLKREFIEWAKYAGKEI 352
>3al0_C Glutamyl-tRNA(Gln) amidotransferase subunit C, GL tRNA synthetase
2; protein-RNA complex, ligase-RNA complex; HET: GSU;
3.37A {Thermotoga maritima}
Length = 592
Score = 527 bits (1360), Expect = 0.0
Identities = 126/348 (36%), Positives = 197/348 (56%), Gaps = 26/348 (7%)
Query: 1 MTIVRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIID 60
+VR RFAPSPTG+LH+GG RTALF+W +AR G FILRIEDTD RS+ Q I++
Sbjct: 127 FELVRVRFAPSPTGHLHVGGARTALFNWMFARKEGGKFILRIEDTDTERSSREYEQQILE 186
Query: 61 GMKWLGLNYDEG--------PFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKK 112
++W GL++DEG P+ Q++R+ Y E L+ + AYY E+ ++
Sbjct: 187 SLRWCGLDWDEGPDIGGDFGPYRQSERLEIYREYAEKLVEDKRAYYVVYDKEDPS--KEL 244
Query: 113 QRSFGEKPRYNRIWRPEPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKEL 172
++ Y P I+FK G ++ DL+KG + N L
Sbjct: 245 FTTYEYPHEYKEKGHP--------------VTIKFKVLP-GKTSFEDLLKGYMEFDNSTL 289
Query: 173 DDLVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHL 232
+D +I++++G PTYNF +DD M+I+HV RG+DH++NTP+Q+ I +A G P + H+
Sbjct: 290 EDFIIMKSNGFPTYNFAVVVDDHLMRISHVFRGEDHLSNTPKQLMIYEAFGWEAPVFMHI 349
Query: 233 PMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNEEIFSIKQFCYWFN 292
P+++ S++ +SKR AT + +++++G L A++NYLA LGW +EIF+I++ F
Sbjct: 350 PLILGSDRTPLSKRHGATSVEHFRREGILSRALMNYLALLGWRVEGDEIFTIEEKLQSF- 408
Query: 293 DCKYLSKSPAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKYRI 340
D K +S F+ +KLEW+N +++ D + L K I
Sbjct: 409 DPKDISNKGVIFDYQKLEWVNGKHMRRIDLEDLKREFIEWAKYAGKEI 456
>1j09_A Glutamyl-tRNA synthetase; glurs-ATP-Glu complex, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase; HET: GLU ATP; 1.80A {Thermus
thermophilus} SCOP: a.97.1.1 c.26.1.1 PDB: 1n75_A*
1n77_A* 1n78_A* 2cuz_A* 2cv0_A* 2cv1_A* 2cv2_A* 2dxi_A*
1g59_A 1gln_A
Length = 468
Score = 513 bits (1323), Expect = 0.0
Identities = 123/347 (35%), Positives = 196/347 (56%), Gaps = 18/347 (5%)
Query: 3 IVRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGM 62
+V TR APSPTG+ H+G ALF++A+AR G FI+RIEDTD R A + I+ +
Sbjct: 1 MVVTRIAPSPTGDPHVGTAYIALFNYAWARRNGGRFIVRIEDTDRARYVPGAEERILAAL 60
Query: 63 KWLGLNYDEG--------PFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQR 114
KWLGL+YDEG P+ Q++R+ Y + LL +AY + + EE+E RK
Sbjct: 61 KWLGLSYDEGPDVGGPHGPYRQSERLPLYQKYAEELLKRGWAYRAFETPEELEQIRK--- 117
Query: 115 SFGEKPRYNRIWRP-EPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKELD 173
EK Y+ R P + VIR K P G D ++G + N+E+
Sbjct: 118 ---EKGGYDGRARNIPPEEAEERARRGEPHVIRLKVPRPGTTEVKDELRGVVVYDNQEIP 174
Query: 174 DLVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHLP 233
D+V++++DG PTY+ +DD M +T VIR ++ + +TP + + +A G P + H+P
Sbjct: 175 DVVLLKSDGYPTYHLANVVDDHLMGVTDVIRAEEWLVSTPIHVLLYRAFGWEAPRFYHMP 234
Query: 234 MVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNE-EIFSIKQFCYWFN 292
++ + +K KISKRK T + +YK +GFLPEA+ NYL +G+S + EIF++++F F
Sbjct: 235 LLRNPDKTKISKRKSHTSLDWYKAEGFLPEALRNYLCLMGFSMPDGREIFTLEEFIQAF- 293
Query: 293 DCKYLSKSPAQFNLKKLEWLNNFYIK-SYDDKKLLNLIQPIIKKKKY 338
+ +S F+L+KL W+N YI+ +++ ++P +++
Sbjct: 294 TWERVSLGGPVFDLEKLRWMNGKYIREVLSLEEVAERVKPFLREAGL 340
>1nzj_A Hypothetical protein YADB; Zn cluster, glutamyl T-RNA synthetase,
structural genomics, unknown function; 1.50A
{Escherichia coli} SCOP: c.26.1.1 PDB: 2zlz_A* 4a91_A*
Length = 298
Score = 419 bits (1080), Expect = e-148
Identities = 89/311 (28%), Positives = 144/311 (46%), Gaps = 26/311 (8%)
Query: 1 MT--IVRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTI 58
MT RFAPSP+G LH G + AL S+ AR G +++RIED D R A +TI
Sbjct: 1 MTDTQYIGRFAPSPSGELHFGSLIAALGSYLQARARQGRWLVRIEDIDPPREVPGAAETI 60
Query: 59 IDGMKWLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGE 118
+ ++ GL++D +Q++R + Y E + +L +YYC + I+S
Sbjct: 61 LRQLEHYGLHWDGDVLWQSQRHDAYREALAWLHEQGLSYYCTCTRARIQSIG-------- 112
Query: 119 KPRYNRIWRPEPGKILPSIPINRKPVIRFKNPLYGNITWNDLIKGKITISNK-ELDDLVI 177
Y+ R L P N IR ++P+ + D ++G I K +D +I
Sbjct: 113 -GIYDGHCRV-----LHHGPDNAAVRIRQQHPV---TQFTDQLRGIIHADEKLAREDFII 163
Query: 178 VRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHLPMVID 237
R DG+ YN +DD +T ++RG D I T RQI++ + G +P Y HLP+ ++
Sbjct: 164 HRRDGLFAYNLAVVVDDHFQGVTEIVRGADLIEPTVRQISLYQLFGWKVPDYIHLPLALN 223
Query: 238 SNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWSHGNEEIFSIKQFCYWFN---DC 294
K+SK+ A + + L A L +L + +H + FS++Q
Sbjct: 224 PQGAKLSKQNHAPALPKGDPRPVLIAA-LQFLGQQAEAHW--QDFSVEQILQSAVKNWRL 280
Query: 295 KYLSKSPAQFN 305
+ +S +
Sbjct: 281 TAVPESAIVNS 291
>3aii_A Glutamyl-tRNA synthetase; amino-acyl tRNA synthetase, ligase; 1.65A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 553
Score = 124 bits (313), Expect = 7e-32
Identities = 83/310 (26%), Positives = 124/310 (40%), Gaps = 70/310 (22%)
Query: 4 VRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGMK 63
V RFAP+P+G LHIG R A+ + YAR ++G ILRIEDTD R A I ++
Sbjct: 97 VVLRFAPNPSGPLHIGHARAAILNHEYARKYDGRLILRIEDTDPRRVDPEAYDMIPADLE 156
Query: 64 WLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGEKPRYN 123
WLG+ +DE Q+ R+ Y+E L+ AY C EE ++ +
Sbjct: 157 WLGVEWDE-TVIQSDRMETYYEYTEKLIERGGAYVCTCRPEEF----RELK--------- 202
Query: 124 RIWRPEPGKILP----SIPINRKPVIRFKNPLYGNITWNDLIKGKITIS--NKELDDLVI 177
G+ N + G+ ++ K ++ N + D V
Sbjct: 203 -----NRGEACHCRSLGFRENLQRWREMFEMKEGSAV----VRVKTDLNHPNPAIRDWVS 253
Query: 178 VRADGI---------------PTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKAL 222
+R I P NF A+DD + +THV+RG DH+ N +Q + + L
Sbjct: 254 MR---IVEAEHPRTGTRYRVYPMMNFSVAVDDHLLGVTHVLRGKDHLANREKQEYLYRHL 310
Query: 223 GVTLPF---YGHLPMVIDSNKVKISKRKEATDI------------MY----YKKKGFLPE 263
G P YG L M + V +S I + ++G PE
Sbjct: 311 GWEPPEFIHYGRLKM----DDVALSTSGAREGILRGEYSGWDDPRLGTLRAIARRGIRPE 366
Query: 264 AILNYLARLG 273
AI + +G
Sbjct: 367 AIRKLMVEIG 376
>1qtq_A GLNRS, protein (glutaminyl-tRNA synthetase); glutamine, trnaGln, E.
coli, complex, ligase/RNA complex; HET: QSI; 2.25A
{Escherichia coli} SCOP: b.53.1.2 c.26.1.1 PDB: 1gsg_P*
1gts_A* 1gtr_A* 1zjw_A* 1o0b_A* 1o0c_A* 1qru_A* 1qrs_A*
1qrt_A* 1euy_A* 1euq_A* 1exd_A* 2rd2_A* 2re8_A* 1nyl_A
Length = 553
Score = 69.2 bits (170), Expect = 3e-13
Identities = 31/124 (25%), Positives = 59/124 (47%), Gaps = 4/124 (3%)
Query: 4 VRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGMK 63
V TRF P P G LHIG ++ ++ A+ + G LR +DT+ + + ++I + ++
Sbjct: 27 VHTRFPPEPNGYLHIGHAKSICLNFGIAQDYKGQCNLRFDDTNPVKEDIEYVESIKNDVE 86
Query: 64 WLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGEKPRYN 123
WLG ++ Y + ++ L++ AY + E+I ++ R +P N
Sbjct: 87 WLGFHWSGNVRYSSDYFDQLHAYAIELINKGLAYVDELTPEQI----REYRGTLTQPGKN 142
Query: 124 RIWR 127
+R
Sbjct: 143 SPYR 146
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 69.5 bits (170), Expect = 3e-13
Identities = 38/124 (30%), Positives = 60/124 (48%), Gaps = 4/124 (3%)
Query: 4 VRTRFAPSPTGNLHIGGIRTALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGMK 63
V TRF P P+G H+G + +L + AR + G F LR++DT+ + +I D +K
Sbjct: 67 VVTRFPPDPSGYAHLGHVFASLLDFNTARQYGGQFNLRMDDTNPELARQEYVDSIADDLK 126
Query: 64 WLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGEKPRYN 123
WLGL++ E +Y + +RY+ L+ AY S EE+ + R P
Sbjct: 127 WLGLDWGEHFYYASDYFDRYYAYAEQLIRQGDAYVESVSPEEL----SRLRGNATTPGTP 182
Query: 124 RIWR 127
+R
Sbjct: 183 SPYR 186
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.9 bits (100), Expect = 1e-04
Identities = 50/396 (12%), Positives = 116/396 (29%), Gaps = 132/396 (33%)
Query: 33 HFNGIFI--LRIEDT-DINRSTLSATQTIIDGMKWLGLNYDEGPFY------QTKRINRY 83
F F+ +D D+ +S LS + ID + + +K+
Sbjct: 24 VFEDAFVDNFDCKDVQDMPKSILSKEE--IDHI--IMSKDAVSGTLRLFWTLLSKQEEMV 79
Query: 84 FEIINYLLSNDYAYYCYSSVEEIESFRKKQRSFGEKPRY----NRIWRPEPGKILPSIPI 139
+ + +L +Y + S ++ ++Q S Y +R++ + +
Sbjct: 80 QKFVEEVLRINYKFL-MSPIKT----EQRQPS-MMTRMYIEQRDRLYNDNQ--VFAKYNV 131
Query: 140 NR-KPVIRFKNPLY------------------------------------GNITWNDLIK 162
+R +P ++ + L I W
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW----- 186
Query: 163 GKITISNKELDDLVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQINILKAL 222
+ + N + V+ ID + DH +N +I+ ++A
Sbjct: 187 --LNLKNCNSPETVL-----EMLQKLLYQID------PNWTSRSDHSSNIKLRIHSIQAE 233
Query: 223 GVTL---PFYGHLPMVID---SNKV--------KI---SKRKEATDI----------MYY 255
L Y + +V+ + K KI ++ K+ TD + +
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH 293
Query: 256 KKKGFLPEAILNYLARLGWSHGNEEIFSI-KQFCYWFNDCKYLSKSP---AQFNLKKLEW 311
P+ + + L + + + + ++ + +P + +
Sbjct: 294 HSMTLTPDEVKSLLLK--YL--DCRPQDLPREVL---------TTNPRRLSIIAESIRDG 340
Query: 312 LNNF-YIKSYDDKKLLNLIQ-------PIIKKKKYR 339
L + K + KL +I+ P +K +
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Score = 37.1 bits (85), Expect = 0.009
Identities = 47/293 (16%), Positives = 88/293 (30%), Gaps = 85/293 (29%)
Query: 63 KWLGLNYDEGPFYQTKRIN-RYFEIINYLLSND------YAYYCYSSVEE-IESFRKKQR 114
K+L + P + N R II + + + + + IES
Sbjct: 309 KYLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
Query: 115 SFGEKPRYNRIWRPEPGKILP-SIPINRKPVIRFKNPLYGNITWNDLIKGKITISNKELD 173
+ ++R+ + P S I P I + W D+I + D
Sbjct: 368 PAEYRKMFDRL------SVFPPSAHI---PTILLS------LIWFDVI---------KSD 403
Query: 174 DLVIVRADGIPTYNFCA---AIDDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYG 230
+V+V N ++ + T I ++ AL
Sbjct: 404 VMVVV--------NKLHKYSLVEKQPKESTISI--PSIYLELKVKLENEYAL-------- 445
Query: 231 HLPMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLAR-LGWSH----GNEEIFSIK 285
H +V + I K + +P + Y +G H + E ++
Sbjct: 446 HRSIV---DHYNIPKT--------FDSDDLIPPYLDQYFYSHIGH-HLKNIEHPERMTL- 492
Query: 286 QFCYWFNDCKYLSKSPAQFNLKKLEWLNNFYIKSYDDKKLLNLIQPIIKKKKY 338
F F D ++L + K+ + + S +LN +Q + K Y
Sbjct: 493 -FRMVFLDFRFLEQ--------KIRHDSTAWNASGS---ILNTLQQLKFYKPY 533
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 39.6 bits (92), Expect = 0.001
Identities = 18/105 (17%), Positives = 31/105 (29%), Gaps = 47/105 (44%)
Query: 137 IPIN-RKPVIR---------FKNPLYGNIT---WNDLIKGKITISNKELDDLVIVRADGI 183
IP + RK F + L + DL+K ++ + K++ I
Sbjct: 407 IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI---------QI 457
Query: 184 PTYNFCAAID---------------------DWD----MKITHVI 203
P Y+ D W+ K TH++
Sbjct: 458 PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Score = 37.3 bits (86), Expect = 0.008
Identities = 17/100 (17%), Positives = 35/100 (35%), Gaps = 27/100 (27%)
Query: 181 DGIPTYNFCAAIDDWDMK--ITHVIR------GDDHIN----NTPRQINI------LKAL 222
+G+P+ +I + + +V + + N + + + L L
Sbjct: 332 EGVPSPML--SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 223 GVTLPFYGHLPMVIDSNKVKISKRKEATDIMYYKKKGFLP 262
+TL P +D +++ S+RK FLP
Sbjct: 390 NLTLR-KAKAPSGLDQSRIPFSERKLKFSN------RFLP 422
Score = 32.3 bits (73), Expect = 0.25
Identities = 44/330 (13%), Positives = 83/330 (25%), Gaps = 116/330 (35%)
Query: 16 LHIGGIRTALF----SWAYARHFNGIFILRIEDTDINRSTLSATQTIID-GMKWLGL--- 67
L G + L S+ A F + + + T + K+LG
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSS 70
Query: 68 NYDEGPFYQTKRINR----YFEIINYLLSND-YAYYCYSSVEEIESFRKKQ--------- 113
+ Q ++ FE YL ND +A E + K +
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFEN-CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 114 RSFGEKPRYNRIWRPEPGKILPSIPINRKPVIRFKNPLY------GNI------------ 155
R ++P + + ++ L GN
Sbjct: 130 RIMAKRP----FDKKSNSALFRAVGEG-------NAQLVAIFGGQGNTDDYFEELRDLYQ 178
Query: 156 TWNDLIKGKITISNKELDDLVIVRADGIPTYNFCAAIDDWDMKITHVIRGDDHINNTPRQ 215
T++ L+ I S + L +L+ D + I +W + NTP +
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW-------LENPS---NTPDK 228
Query: 216 INILKALGVTLPFYGHLPMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYLARLGWS 275
+ L ++ ++ P L +
Sbjct: 229 -DYLLSIPISCP--------------------------------------LIGVI----- 244
Query: 276 HGNEEIFSIKQFCYWFNDCKYLSKSPAQFN 305
Q ++ K L +P +
Sbjct: 245 ----------QLAHYVVTAKLLGFTPGELR 264
>1irx_A Lysyl-tRNA synthetase; beta sandwitch, zinc-binding structure,
rossmann fold, alpha-helix CAGE; 2.60A {Pyrococcus
horikoshii} SCOP: a.97.1.2 c.26.1.1
Length = 523
Score = 36.0 bits (82), Expect = 0.017
Identities = 29/279 (10%), Positives = 66/279 (23%), Gaps = 22/279 (7%)
Query: 11 SPTGNLHIGGIR-----TALFSWAYARHFNGIFILRIEDTDINRSTLSATQTIIDGMKWL 65
+P+G +H+G R + + + I +D D R + +L
Sbjct: 29 TPSGYVHVGNFRELFTAYIVGHALRDKGYEVRHIHMWDDYDRFRK--VPRNVPQEWKDYL 86
Query: 66 GLNYDEGPFYQTKRINR----YFEIINYLLSNDYAYYCYSSVEEIESFRK---KQRSFGE 118
G+ E P + + + + E + + +F +
Sbjct: 87 GMPISEVPDPWGCHESYAEHFMRKFEEEVEKLGIEVDLLYASELYKRGEYSEEIRLAFEK 146
Query: 119 KPRYNRIWRPEPGKILPSIPINRKPVIRFKNPLYG--NITWNDLIKGKITISNKELDDLV 176
+ + I P + K+ E +
Sbjct: 147 RDKIMEILNKYREIAKQPPLPENWWPAMVYCPEHRREAEIIEWDGGWKVKYKCPEGHEGW 206
Query: 177 IVRADGIPTYNFCA--AIDDWDMKITHVIRGDDHINNTPRQIN----ILKALGVTLPFYG 230
+ G + + + G DH+ I + G P
Sbjct: 207 VDIRSGNVKLRWRVDWPMRWSHFGVDFEPAGKDHLVAGSSYDTGKEIIKEVYGKEAPLSL 266
Query: 231 HLPMVIDSNKVKISKRKEATDIMYYKKKGFLPEAILNYL 269
V + + I+ L ++ ++
Sbjct: 267 MYEFVGIKGQKGKMSGSKGNVILLSDLYEVLEPGLVRFI 305
>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc
genomics, protein structure initiative; 2.20A
{Campylobacter jejuni}
Length = 464
Score = 34.5 bits (80), Expect = 0.042
Identities = 26/93 (27%), Positives = 32/93 (34%), Gaps = 28/93 (30%)
Query: 174 DLVIVRADGIPTYNFCAAI----DDWDMKITHVIR--GDDHINNTPRQINILKALG---- 223
D VI+R DG TY A I D I G DH PR ++ LG
Sbjct: 207 DRVIIREDGRGTY-LAADIVYHKDKMSRGYGKCINIWGADHHGYIPRMKAAMEFLGFDSN 265
Query: 224 ---------VTLPFYGHLPMVIDSNKVKISKRK 247
V+L + D K+SKR
Sbjct: 266 NLEIILAQMVSL--------LKDGEPYKMSKRA 290
>3p9z_A Uroporphyrinogen III cosynthase (HEMD); MCSG, PSI2, structural
genomics, protein structure initiativ midwest center for
structural genomics; HET: MSE; 2.10A {Helicobacter
pylori}
Length = 229
Score = 30.5 bits (69), Expect = 0.64
Identities = 6/58 (10%), Positives = 23/58 (39%)
Query: 54 ATQTIIDGMKWLGLNYDEGPFYQTKRINRYFEIINYLLSNDYAYYCYSSVEEIESFRK 111
++ + G+++ + Y+ K + N L + + ++++ ++F
Sbjct: 121 IVSSLDTILLEHGIDFKQAVVYENKLKHLTLSEQNALKPKEKSILIFTAISHAKAFLH 178
>2y3a_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit beta
isoform; transferase, phosphoinositide 3-kinase, RTK;
HET: GD9; 3.30A {Mus musculus}
Length = 1092
Score = 28.3 bits (62), Expect = 5.0
Identities = 16/102 (15%), Positives = 29/102 (28%), Gaps = 8/102 (7%)
Query: 87 INYLLSNDYAYYCYSSVEEIESFRKKQRSFGEK--------PRYNRIWRPEPGKILPSIP 138
I L+ + E+ FR+K R F E + + P + PS+
Sbjct: 148 IGVLIGKGLHEFDALKDPEVNEFRRKMRKFSEAKIQSLVGLSWIDWLKHTYPPEHEPSVL 207
Query: 139 INRKPVIRFKNPLYGNITWNDLIKGKITISNKELDDLVIVRA 180
N + + + N +S + A
Sbjct: 208 ENLEDKLYGGKLVVAVHFENSQDVFSFQVSPNLNPIKINELA 249
>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide
complex, antitumor protein; HET: SEP; 1.85A {Homo
sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A*
1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A
3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A
2ing_X 1oqa_A
Length = 214
Score = 27.4 bits (60), Expect = 5.6
Identities = 13/104 (12%), Positives = 32/104 (30%), Gaps = 8/104 (7%)
Query: 193 DDWDMKITHVIRGDDHINNTPRQINILKALGVTLPFYGHLPMVIDSNKVKIS-KRKEATD 251
+ + THV+ D R + + V+ V S K ++ +
Sbjct: 33 NLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKW-------VVSYFWVTQSIKERKMLN 85
Query: 252 IMYYKKKGFLPEAILNYLARLGWSHGNEEIFSIKQFCYWFNDCK 295
++ +G + + + + +IF + C +
Sbjct: 86 EHDFEVRGDVVNGRNHQGPKRARESQDRKIFRGLEICCYGPFTN 129
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.141 0.442
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,630,330
Number of extensions: 352426
Number of successful extensions: 954
Number of sequences better than 10.0: 1
Number of HSP's gapped: 905
Number of HSP's successfully gapped: 33
Length of query: 340
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 246
Effective length of database: 4,077,219
Effective search space: 1002995874
Effective search space used: 1002995874
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.0 bits)