RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7269
(235 letters)
>3h99_A Methionyl-tRNA synthetase; rossmann fold, aminoacyl-tRNA
synthetase, ATP-binding, ligas binding,
nucleotide-binding, protein biosynthesis; HET: CIT;
1.40A {Escherichia coli} PDB: 3h97_A* 3h9b_A* 1f4l_A
3h9c_A* 1pfv_A* 1pfu_A 1p7p_A* 1pfw_A* 1pfy_A* 1pg0_A*
1pg2_A* 1qqt_A 1mea_A 1med_A
Length = 560
Score = 197 bits (502), Expect = 5e-60
Identities = 38/135 (28%), Positives = 63/135 (46%), Gaps = 13/135 (9%)
Query: 2 EDKLQSWVSETSDQWSSNARVICKAWLKDGLKPRCITRDLKWGIPVPLPGFENKVFYVWF 61
+ LQ+W S + W + GL+ I+RD + +P K FYVW
Sbjct: 211 SEMLQAWTR--SGALQEQVANKMQEWFESGLQQWDISRDAPY-FGFEIPNAPGKYFYVWL 267
Query: 62 DAPIGYMSLTQSYCGQ------YEAWWKSAPQSKITLYQFMAKDNVPFHSIMFPATLVAA 115
DAPIG M ++ C + ++ +WK ++ LY F+ KD V F S+ +PA L +
Sbjct: 268 DAPIGLMGSFKNLCDKRGDSVSFDEYWKKDSTAE--LYHFIGKDIVYFLSLFWPAMLEGS 325
Query: 116 GDQYTKVNHIMATGH 130
+ K +++ G+
Sbjct: 326 N--FRKPSNLFVHGY 338
Score = 40.3 bits (95), Expect = 3e-04
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 128 TGHKIGTPAPLFRKIEQAQVDEW 150
GHK+ L+ +I+ QV+
Sbjct: 533 LGHKVNPFKALYNRIDMRQVEAL 555
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A
{Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1
Length = 722
Score = 197 bits (503), Expect = 4e-59
Identities = 49/146 (33%), Positives = 80/146 (54%), Gaps = 19/146 (13%)
Query: 1 IEDKLQSWVSETSDQWSSNARVICKAWLKDGLKPRCITRDLKWGIPVPL--PGFENKVFY 58
++L+ W+ + W N + + +W+++GL+ R ITRDL WGIPVPL + KV Y
Sbjct: 195 FAERLKRWIEKQP--WKPNVKNMVLSWIEEGLEERAITRDLNWGIPVPLDEEDMKGKVLY 252
Query: 59 VWFDAPIGYMSLTQSYC------GQYEAWWKSAPQSKITLYQFMAKDNVPFHSIMFPATL 112
VWF+APIGY+S+T + +++ +W + + + F+ KDN+PFH+I +PA L
Sbjct: 253 VWFEAPIGYISITIEHFKRIGKPNEWKKYWLN-IDGQTRVIHFIGKDNIPFHAIFWPAFL 311
Query: 113 VAAGDQ--------YTKVNHIMATGH 130
+A G + I A +
Sbjct: 312 MAYGKYKDEEVEAEWNLPYDIPANEY 337
Score = 52.0 bits (125), Expect = 5e-08
Identities = 15/86 (17%), Positives = 31/86 (36%)
Query: 129 GHKIGTPAPLFRKIEQAQVDEWKLKYGGQQSKESSNNKKETKQAEITFSSVEELEAAVAT 188
GHK+ P LF+K+ Q+ + L Y + + E + + V + +
Sbjct: 535 GHKVRKPEILFKKVTDDQIIYFILNYMAKGNPEGARILLDKYYKREDVIRVAKEKFGDEA 594
Query: 189 QGALLGTVDVIVMSSRTGAYAVTSEF 214
+ L I + + + +F
Sbjct: 595 EVVLRRVYKDIKLKEKKEGKEMYVKF 620
>2csx_A Methionyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus}
PDB: 2ct8_A*
Length = 497
Score = 72.6 bits (179), Expect = 5e-15
Identities = 35/115 (30%), Positives = 54/115 (46%), Gaps = 19/115 (16%)
Query: 26 AWLKDGLKPRCITRD---LKWGIPVPLPGFENKVFYVWFDAPIGYMSLTQSYCGQYEAWW 82
+++K GLK +TR +KWGIPVP YVWFDA Y+S + + E +W
Sbjct: 195 SFVKQGLKDLSVTRPRSRVKWGIPVP--FDPEHTIYVWFDALFNYISALED---KVEIYW 249
Query: 83 KSAPQSKITLYQFMAKDNVPFHSIMFPATLVAAG-DQYTKVN---HIMATGHKIG 133
+ + KD + FH++ +PA L++ G + KV G K+
Sbjct: 250 PAD-------LHLVGKDILRFHTVYWPAFLMSLGYELPKKVFAHGWWTVEGKKMS 297
>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein
biosynthesis, ligase, aminoacyl- synthetase; HET: ADN
CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*
Length = 524
Score = 71.5 bits (176), Expect = 1e-14
Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 13/95 (13%)
Query: 26 AWLKDGLKPRCITR-DLKWGIPVPLPGFENKVFYVWFDAPIGYMS---LTQSYCGQYEAW 81
+++ GLK I+R WG+PVP + V YVW DA Y++ + + +
Sbjct: 206 SFVSGGLKDLSISRTTFDWGVPVP--DHPDHVMYVWVDALTNYLTGVGFPDTESESFRRY 263
Query: 82 WKSAPQSKITLYQFMAKDNVPFHSIMFPATLVAAG 116
W P + KD + FH++ +PA L++AG
Sbjct: 264 W---PAD----LHMIGKDIIRFHTVYWPAFLMSAG 291
>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS, isomerase,
structural genomics, NPPSFA; 1.80A {Thermus
thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A 1a8h_A
2d54_A
Length = 500
Score = 70.3 bits (173), Expect = 3e-14
Identities = 30/99 (30%), Positives = 45/99 (45%), Gaps = 21/99 (21%)
Query: 26 AWLKDGLKPRCITRD---LKWGIPVPLPGFENKVFYVWFDAPIGYMSLTQSYCG-----Q 77
A L + + I+R + WGIP+P EN V +VWFDA + Y+ S
Sbjct: 192 AMLAEPIGDLSISRPKSRVPWGIPLP--WDENHVTFVWFDALLNYV----SALDYPEGEA 245
Query: 78 YEAWWKSAPQSKITLYQFMAKDNVPFHSIMFPATLVAAG 116
Y +W A + + KD + H++ +P L AAG
Sbjct: 246 YRTFWPHA-------WHLIGKDILKPHAVFWPTMLKAAG 277
>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class
IA:methionyl-tRNA...; structural genomics; 2.65A
{Brucella melitensis biovar abortus 230ORGANISM_TAXID}
Length = 536
Score = 70.0 bits (172), Expect = 3e-14
Identities = 32/94 (34%), Positives = 47/94 (50%), Gaps = 12/94 (12%)
Query: 26 AWLKDGLKPRCITR-DLKWGIPVPLPGFENKVFYVWFDAPIGYMSLT--QSYCGQYEAWW 82
+++K GLK I+R WGIPVP G E V YVW DA Y++ + A+W
Sbjct: 218 SFVKSGLKDLSISRTTFDWGIPVP--GDEKHVMYVWVDALTNYITALGYPDTTDERWAYW 275
Query: 83 KSAPQSKITLYQFMAKDNVPFHSIMFPATLVAAG 116
P + + KD FH++ +PA L++A
Sbjct: 276 ---PAN----AHIIGKDISRFHAVYWPAFLMSAQ 302
>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase,
tRNA ligase metrs, methionine, translation, ATP-binding;
HET: ME8; 2.00A {Leishmania major}
Length = 564
Score = 69.6 bits (171), Expect = 5e-14
Identities = 26/100 (26%), Positives = 38/100 (38%), Gaps = 12/100 (12%)
Query: 26 AWLKDGLKPRCITRD----LKWGIPVPLPGFENKVFYVWFDAPIGYMSLTQSYCGQYEAW 81
++ GL I+R + W IPVP G E YVW DA Y + +
Sbjct: 224 KTVEKGLFDLSISRKRESVMNWSIPVP--GDERHCIYVWLDALFNYYTGA-LTRVATDGT 280
Query: 82 WKSAPQSKITLY-----QFMAKDNVPFHSIMFPATLVAAG 116
+ KD + FH+I +PA L++A
Sbjct: 281 ETLDEDHHALNRWPADVHVVGKDILKFHAIYWPAFLMSAE 320
>3tun_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS, metrs,
parasite, protein-IN complex, translation, nucleotide
binding; HET: C13; 2.55A {Trypanosoma brucei}
Length = 542
Score = 56.2 bits (135), Expect = 2e-09
Identities = 28/125 (22%), Positives = 46/125 (36%), Gaps = 12/125 (9%)
Query: 2 EDKLQSWVSETSDQWSSNARV-ICKAWLKDGLKPRCITRD----LKWGIPVPLPGFENKV 56
++L W R ++ GL ++R W IPVP G +
Sbjct: 182 RERLLEWYHANPGCIVPEFRRREVIRAVEKGLPDLSVSRARATLHNWAIPVP--GNPDHX 239
Query: 57 FYVWFDAPIGYMSLTQSYCGQYEAWWKSAPQSKITLY-----QFMAKDNVPFHSIMFPAT 111
YVW DA Y++ ++ + + KD + FH+I +PA
Sbjct: 240 VYVWLDALTNYLTGSRLRVDESGKEVSLVDDFNELERFPADVHVIGKDILKFHAIYWPAF 299
Query: 112 LVAAG 116
L++AG
Sbjct: 300 LLSAG 304
>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 = 43.9 bits (103), Expect = 3e-05
Identities = 47/235 (20%), Positives = 77/235 (32%), Gaps = 83/235 (35%)
Query: 3 DKLQSWVSETSDQWSSNARV-ICKAWLKDGLKPRC--ITRDLKWGIPVPLPGFEN---KV 56
+++Q +V++T+ + +V I L +G + ++ G P L G K
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEIS---LVNG--AKNLVVS-----GPPQSLYGLNLTLRKA 396
Query: 57 FYVWFDAPIGYMSLTQSYCGQYEAWWKSAP--QSKITLY-QFMAKDNVPFHS-IMFPATL 112
AP G L QS P + K+ +F+ PFHS ++ PA+
Sbjct: 397 K-----APSG---LDQS----------RIPFSERKLKFSNRFLPV-ASPFHSHLLVPASD 437
Query: 113 VAAGDQYTKVNHIMATGHKIGTP------------------APLFRKIEQAQVDEWKLKY 154
+ D N++ I P + I + V W
Sbjct: 438 LINKD--LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK-W---- 490
Query: 155 GGQQSKESSNNKKETKQAEITF-----SSVEELEAAVATQGALLGT-VDVIVMSS 203
E++ K T + F S + L T GT V VIV +
Sbjct: 491 ------ETTTQFKATHI--LDFGPGGASGLGVL-----THRNKDGTGVRVIVAGT 532
Score = 29.6 bits (66), Expect = 0.99
Identities = 12/69 (17%), Positives = 21/69 (30%), Gaps = 25/69 (36%)
Query: 61 FDAPIGYMSLTQ---------SYCGQYEAWWKSAPQSKITLYQFMAKDNVPF--HSI-MF 108
F + G +S TQ +E + + + F HS+ +
Sbjct: 1719 FRSEKGLLSATQFTQPALTLMEKA-AFEDLKS----------KGLIPADATFAGHSLGEY 1767
Query: 109 PATLVA-AG 116
A L + A
Sbjct: 1768 AA-LASLAD 1775
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 0.002
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 8/47 (17%)
Query: 142 IEQAQ--VDEWKLKYGGQQSKESSNNKKETKQAEITFSSVEELEAAV 186
E+A+ ++EW + Q K NK + A+ F ++ +A +
Sbjct: 113 REKAKKDLEEWNQRQSEQVEK----NKINNRIADKAF--YQQPDADI 153
>3rbj_A Sortase C1, sortase family protein; sortase fold, beta-barrel,
LID-mutant, PILI BIOG hydrolase; 2.30A {Streptococcus
agalactiae serogroup V} PDB: 3tb7_A 3rbi_A 3rbk_A 3tbe_A
Length = 230
Score = 30.3 bits (68), Expect = 0.40
Identities = 9/38 (23%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 121 KVNHIMATGHKIGTPAPLFRKIEQAQV-DEWKLKYGGQ 157
+ H + T H+ A LF +++ V D + +++ G
Sbjct: 124 ESTHAVLTAHRGLPTAKLFTNLDKVTVGDRFYIEHIGG 161
>3g66_A Sortase C; pilus, transferase; HET: MES; 1.70A {Streptococcus
pneumoniae} PDB: 3g69_A*
Length = 212
Score = 29.9 bits (67), Expect = 0.50
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 121 KVNHIMATGHKIGTPAPLFRKIEQAQV-DEWKLKYGGQQ 158
+ H + T H+ A LF ++++ + D + L Q
Sbjct: 105 ENTHTVITAHRGLPTAELFSQLDKMKKGDIFYLHVLDQV 143
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 28.2 bits (63), Expect = 0.81
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 153 KYGGQQSKESSNNKKETKQAEITFSSVEELEAAV 186
+YG +S E N ET +T+SS ++ A+
Sbjct: 38 QYGVVESCEQVNTDSETAVVNVTYSSKDQARQAL 71
>2xwg_A Sortase; hydrolase, fimbrial assembly; 2.40A {Actinomyces oris}
Length = 235
Score = 29.5 bits (66), Expect = 0.81
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 121 KVNHIMATGHKIGTPAPLFRKIEQAQV-DEWKLKYGGQQ 158
H + TGH + A +F + Q + D + + GQ
Sbjct: 142 PSTHSVLTGHTGLSTATMFDNLNQLKKGDVFYVSSLGQT 180
>3ue3_A Septum formation, penicillin binding protein 3, peptidoglycan
synthetase; transpeptidase, transferase; 2.30A
{Acinetobacter}
Length = 554
Score = 27.6 bits (62), Expect = 3.5
Identities = 9/27 (33%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 180 EELEAAVATQGALLGTVDVIVMSSRTG 206
EL AA A T I + +TG
Sbjct: 219 RELTAAGVANNARSAT--AIAVDVKTG 243
>2w1j_A Putative sortase, sortase C-1; pathogenicity, transferase; 1.24A
{Streptococcus pneumoniae} PDB: 2wts_A 3re9_A
Length = 212
Score = 26.8 bits (59), Expect = 5.0
Identities = 7/39 (17%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 121 KVNHIMATGHKIGTPAPLFRKIEQAQV-DEWKLKYGGQQ 158
H + T H A +F + + +V D++ + +
Sbjct: 106 NSTHAVITAHTGLPTAKMFTDLTKLKVGDKFYVHNIKEV 144
>3re1_A Uroporphyrinogen-III synthetase; HEMD-like family, uroporphyrinogen
III synthase, HMB, lyase; 2.50A {Pseudomonas syringae
PV}
Length = 269
Score = 27.0 bits (60), Expect = 5.0
Identities = 9/39 (23%), Positives = 13/39 (33%), Gaps = 3/39 (7%)
Query: 174 ITFSS---VEELEAAVATQGALLGTVDVIVMSSRTGAYA 209
+ SS E L L + + V S R + A
Sbjct: 197 LVVSSGQGFEHLLQLAGDSWPDLAGLPLFVPSPRVASLA 235
>3o0p_A Sortase family protein; PILI assembly, PILI subunits, transferase
,hydrolas transferase, hydrolase; 1.30A {Streptococcus
agalactiae}
Length = 216
Score = 26.4 bits (58), Expect = 7.8
Identities = 6/38 (15%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 121 KVNHIMATGHKIGTPAPLFRKIEQAQV-DEWKLKYGGQ 157
H + T H LF +++ + D++ ++ +
Sbjct: 110 NSTHTVITAHSGIPDKELFSNLKKLKKGDKFYIQNIKE 147
>4edp_A ABC transporter, substrate-binding protein; clostridium PERF ATCC
13124, center for structural genomics of infectious DI
csgid; 1.85A {Clostridium perfringens}
Length = 351
Score = 26.6 bits (59), Expect = 8.6
Identities = 3/29 (10%), Positives = 10/29 (34%), Gaps = 3/29 (10%)
Query: 175 TFSSVEELEAAVATQGALLGTVDVIVMSS 203
++ E L + +D+ ++
Sbjct: 69 IGNNSERLTKMKNNPNS---QIDITYLAE 94
>2xzc_L FAB A.17 light chain; immune system; HET: XOP; 1.36A {Homo sapiens}
PDB: 2xza_L* 3kdm_L* 3nps_C 1dn0_A 1qlr_A* 2v7n_A 3eo0_A
3eo1_A 2agj_L* 2fx7_L 1tzg_L 2fx8_L 2fx9_L* 1u6a_L
3hi1_L* 3kym_A 3kyk_L 3qwo_L* 3ixt_L* 3qeg_L ...
Length = 216
Score = 26.1 bits (58), Expect = 8.8
Identities = 3/28 (10%), Positives = 10/28 (35%)
Query: 7 SWVSETSDQWSSNARVICKAWLKDGLKP 34
S ++ + + + C+ + P
Sbjct: 179 STLTLSKADYEKHKVYACEVTHQGLSSP 206
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
0.320 0.132 0.409
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,508,134
Number of extensions: 193200
Number of successful extensions: 608
Number of sequences better than 10.0: 1
Number of HSP's gapped: 585
Number of HSP's successfully gapped: 33
Length of query: 235
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 144
Effective length of database: 4,160,982
Effective search space: 599181408
Effective search space used: 599181408
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.4 bits)