RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013758
(437 letters)
>3ulw_A 30S ribosomal protein S15; structural genomics, IDP90515, CE
structural genomics of infectious diseases, csgid, rRNA
BIN translation; 2.36A {Campylobacter jejuni}
Length = 93
Score = 97.7 bits (244), Expect = 4e-25
Identities = 38/94 (40%), Positives = 55/94 (58%), Gaps = 5/94 (5%)
Query: 338 DNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKG 395
+ M+ K E+ +F D GS VQ+A LT +I L+ L +KKD SR G
Sbjct: 2 NAMALDSAKKAEIVA---KFAKKPGDTGSTEVQVALLTARIAELTEHLKIYKKDFSSRLG 58
Query: 396 LQAMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRD 429
L +V +RKRLL YL+R D++SY ++++L LRD
Sbjct: 59 LLKLVGQRKRLLSYLKRKDYNSYSKLITELNLRD 92
>2vqe_O 30S ribosomal protein S15; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1eg0_F*
1gix_R* 1hnw_O* 1hnx_O* 1hnz_O* 1hr0_O 1ibk_O* 1ibl_O*
1ibm_O 1jgo_R* 1jgp_R* 1jgq_R* 1ml5_R* 1xmo_O* 1xmq_O*
1xnq_O* 1xnr_O* 1yl4_R 2b64_O* 2b9m_O* ...
Length = 89
Score = 94.9 bits (237), Expect = 3e-24
Identities = 39/91 (42%), Positives = 55/91 (60%), Gaps = 5/91 (5%)
Query: 340 MSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQ 397
M ++ K ++ + EF D GS VQ+A LT +I LS L HKKD HS +GL
Sbjct: 1 MPITKEEKQKVIQ---EFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLL 57
Query: 398 AMVQRRKRLLKYLRRTDWDSYCFVLSKLGLR 428
MV +R+RLL+YL+R D + Y ++ KLG+R
Sbjct: 58 MMVGQRRRLLRYLQREDPERYRALIEKLGIR 88
>1a32_A Ribosomal protein S15; multiwavelength anomalous diffraction,
protein-RNA, ribosomal protein interactions, ribosome,
RNA-binding; 2.10A {Geobacillus stearothermophilus}
SCOP: a.16.1.2 PDB: 1qd7_H
Length = 88
Score = 94.2 bits (235), Expect = 5e-24
Identities = 41/80 (51%), Positives = 54/80 (67%), Gaps = 2/80 (2%)
Query: 351 AKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLK 408
++ E+FK+ E+D GS VQIA LT +I +L+ L HKKD HSR+GL MV +R+RLL
Sbjct: 8 REIIEQFKVHENDTGSPEVQIAILTEQINNLNEHLRVHKKDHHSRRGLLKMVGKRRRLLA 67
Query: 409 YLRRTDWDSYCFVLSKLGLR 428
YLR D Y ++ KLGLR
Sbjct: 68 YLRNKDVARYREIVEKLGLR 87
>3r8n_O 30S ribosomal protein S15; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 1p6g_O 1p87_O 2ykr_O 3oar_O
3oaq_O 3ofb_O 3ofa_O 3ofp_O 3ofx_O 3ofy_O 3ofo_O 3r8o_O
3i1m_O 2qan_O* 2qb9_O* 2qbb_O* 2qbd_O 2qbf_O 2qbh_O*
2qbj_O* ...
Length = 88
Score = 94.2 bits (235), Expect = 6e-24
Identities = 39/91 (42%), Positives = 53/91 (58%), Gaps = 7/91 (7%)
Query: 340 MSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQ 397
+S+ AK+ EF +D GS VQ+A LT +I HL HKKD HSR+GL
Sbjct: 2 LSTEAT-----AKIVSEFGRDANDTGSTEVQVALLTAQINHLQGHFAEHKKDHHSRRGLL 56
Query: 398 AMVQRRKRLLKYLRRTDWDSYCFVLSKLGLR 428
MV +R++LL YL+R D Y ++ +LGLR
Sbjct: 57 RMVSQRRKLLDYLKRKDVARYTQLIERLGLR 87
>3bbn_O Ribosomal protein S15; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 90
Score = 86.2 bits (214), Expect = 4e-21
Identities = 27/76 (35%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 356 EFKMSESDCGSARVQIAQLTTKIKHLSSAL--HKKDKHSRKGLQAMVQRRKRLLKYLRRT 413
+ E + GS Q+ T KI+ L+ L HKKD S++GL+ + +R+RLL YL +
Sbjct: 11 SDEKKEENKGSVEFQVFCFTNKIRRLTLHLELHKKDYSSQRGLRKTLGKRQRLLAYLLKI 70
Query: 414 DWDSYCFVLSKLGLRD 429
+ Y ++SKL +R+
Sbjct: 71 NGVRYKELISKLNIRE 86
>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 = 62.6 bits (151), Expect = 1e-10
Identities = 45/337 (13%), Positives = 103/337 (30%), Gaps = 106/337 (31%)
Query: 8 PKHRSLTNPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSSSS 67
P+ TNP + + + S D +N+ + + + + +++SL P
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP---------- 368
Query: 68 SSRGPPSKVASLEEIRR---NLAEFRQRSTVPPPI------ESNSTESQSQSQTQSQSQS 118
E R+ L+ F + +P + + ++
Sbjct: 369 ------------AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM----------- 405
Query: 119 QHISFQELYKRNTVNETLASKPSGKPSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDP 178
+ +L+K +L K +
Sbjct: 406 --VVVNKLHKY-----SLVEK------------------------QPKEST--------- 425
Query: 179 LSLKNFTNTLRMKPADDNA-HRVIGGSQELPALVFGKEKKEEEKAVELERMKTDFVKMYS 237
+S+ + L++K ++ A HR I +P K + + + ++ Y
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVDHYNIP------------KTFDSDDLIPPYLDQYF 473
Query: 238 FEELGDKLKKLRPEGLEGGFSLRELNERLM--RLRVMEMNESNSKIGAGTISALRSSLAR 295
+ +G LK + F + L+ R + ++R + S T+ L+ +
Sbjct: 474 YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK--FYK 531
Query: 296 IQIEKEEKARVQRINILEGFGGTPEYLLHPPKEHLVE 332
I + + +N + F L +E+L+
Sbjct: 532 PYICDNDPKYERLVNAILDF-------LPKIEENLIC 561
Score = 48.3 bits (114), Expect = 4e-06
Identities = 42/279 (15%), Positives = 82/279 (29%), Gaps = 66/279 (23%)
Query: 174 KNSD--PLSLKNFTNTLRMKPADDNAHRVIGGSQELPALVFGKEKKEEEKAVEL------ 225
+ D + F + K D ++ +E+ ++ K + L
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILS-KEEIDHII--MSKDAVSGTLRLFWTLLS 73
Query: 226 --ERMKTDFV-----KMYSFEELGDKLKK--LRPEGLEGGFSLRELNERLMRLRVMEMNE 276
E M FV Y F L +K +P + + E +RL
Sbjct: 74 KQEEMVQKFVEEVLRINYKF--LMSPIKTEQRQPSMMTRMYI--EQRDRLYN-------- 121
Query: 277 SNSKIGAGTIS------ALRSSLARIQIEKEEKARVQRINILEGFGGTPEYLLHPPKEHL 330
N +S LR +L ++ K V +++G G+ K +
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAK----NV----LIDGVLGSG-------KTWV 166
Query: 331 VEKYFHPDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSALHKKDK 390
+ K++ + F ++ +C S + L + + +
Sbjct: 167 A--------LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 391 HSRKGLQAMVQRRKRLLKYLRRTDWDSYCFVLSKLGLRD 429
HS + + L + L+ Y L L L +
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKP---YENCL--LVLLN 252
>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 = 49.3 bits (117), Expect = 2e-06
Identities = 70/476 (14%), Positives = 142/476 (29%), Gaps = 144/476 (30%)
Query: 19 IHLFSTSQNDNNDNNNNYSNSSLNSYFSDVKASLRKQTPPNQTTSSS--SSSSRGPPSKV 76
IH + ND + + +Y + + R P ++ ++S+ + G +++
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYITARIMAKR---PFDKKSNSALFRAVGEG-NAQL 156
Query: 77 AS-----------LEEIRRNLAEFRQRSTVPPPIESNSTESQSQSQTQSQSQSQHISFQE 125
+ EE+ R+L + T + S ++T S+ + ++
Sbjct: 157 VAIFGGQGNTDDYFEEL-RDLYQ-----TYHVLVGDLIKFS---AETLSELIRTTLDAEK 207
Query: 126 LYKRN-TVNETLASKPSGKPSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDPL----S 180
++ + + E L PS P + + + S PL
Sbjct: 208 VFTQGLNILEWL-ENPSNTPDKDYLLSIP-------------------I--SCPLIGVIQ 245
Query: 181 LKNFTNTLR---MKPAD--DNAHRVIGGSQELP-ALVFGKEKKEEE------KAVELERM 228
L ++ T + P + G SQ L A+ + E KA+ +
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL-- 303
Query: 229 KTDF------VKMYSFEELGDKLKKLRPEGLEGG----FSLRELNERLMRLRVMEMNES- 277
F + Y L + + E EG S+ L + ++ V + N
Sbjct: 304 ---FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
Query: 278 --NSKIG------------AGTISALRS---SLARIQIE-KEEKARV---QR-INILEGF 315
++ +G +L +L + + +++R+ +R + F
Sbjct: 361 PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF 420
Query: 316 G--GTPEYLLHPPKEHLVEKYFHPDNMSSA-EKMKIELAKVREEFKMSE----------- 361
+P FH + A + + +L K F +
Sbjct: 421 LPVASP---------------FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
Query: 362 SD----CGSARVQIA-QLTTKIKHLSSALHKKDKH-------SRKGLQAMVQRRKR 405
SD GS +I + + K H GL + R K
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD 521
Score = 48.1 bits (114), Expect = 5e-06
Identities = 61/398 (15%), Positives = 106/398 (26%), Gaps = 126/398 (31%)
Query: 6 FKPKHRSLTNPSLIHLFSTSQNDNNDNNNNYSNSSLNSYFS---DVKASLRK--QTPPNQ 60
+ L S L + + F+ ++ L TP
Sbjct: 180 YHVLVGDLIKFSAETLSELIR----------TTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 61 TTSSSSSSSRGPPSKVASL---EEIRRNL----AEFRQRSTVPPPIESNSTESQ------ 107
S S P V L + L E R ++ + SQ
Sbjct: 230 YLLSIPIS--CPLIGVIQLAHYVVTAKLLGFTPGELRSY------LKGATGHSQGLVTAV 281
Query: 108 --SQSQT-----QSQSQSQHISF------QELYKRNTVNETLASKPS----GKPS----- 145
+++ + S ++ + F E Y ++ ++ G PS
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 146 ----FEAIRESLRQMRARSNNDN-----NNNNRGNGVKNSDPLSLKNFTNTLR-MK-PAD 194
E +++ + + + N N V + P SL TLR K P+
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSG 401
Query: 195 DNAHRVIGGSQELPALVFGKE-------------KKEEEKAVE-LERMKTDF------VK 234
+ R I S+ F + + L + F +
Sbjct: 402 LDQSR-IPFSERKL--KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 235 MYSFEELGDKLKKLRPEGLEGGFSLRELNERLMRLRV---MEMNESNSKI---GAGTISA 288
+Y + G L+ L E + + ++RL V + I G G S
Sbjct: 459 VYDTFD-GSDLRVLSGSISE------RIVDCIIRLPVKWETTTQFKATHILDFGPGGASG 511
Query: 289 LRSSLARIQIEKEEKARVQRINILEGFG------GTPE 320
L L R +G G GT +
Sbjct: 512 L-GVL------------THR--NKDGTGVRVIVAGTLD 534
Score = 45.0 bits (106), Expect = 4e-05
Identities = 44/288 (15%), Positives = 88/288 (30%), Gaps = 103/288 (35%)
Query: 121 ISFQELYKRNTVNET-LASKPSGKPSFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDPL 179
S ++ N VN T GK IRE+ M + D
Sbjct: 1659 FSILDIVINNPVNLTIHFGGEKGK----RIRENYSAMIFETIVDGK------------LK 1702
Query: 180 SLKNFTNTLRMKPADDNAHRVI-GGSQEL--------PALVFGKEKKEEEKAVE---LER 227
+ K F K ++++ + L PAL +E E
Sbjct: 1703 TEKIF------KEINEHSTSYTFRSEKGLLSATQFTQPALT----------LMEKAAFED 1746
Query: 228 MKTDFVKM------------YS----------FEELGDKLKKLRPEGLEGGFSLRELNER 265
+K+ + Y+ E L ++ R G +++ R
Sbjct: 1747 LKSKGLIPADATFAGHSLGEYAALASLADVMSIESLV-EVVFYR------GMTMQVAVPR 1799
Query: 266 LMRLRVMEMNESNSKIGA---GTISAL--RSSLARI--QIEKEEKARVQRINI-LEGF-- 315
E+ SN + A G ++A + +L + ++ K V+ +N +E
Sbjct: 1800 D------ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQY 1853
Query: 316 --GGTPEYLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSE 361
G L + + ++ + KI++ ++++ + E
Sbjct: 1854 VAAGDLRAL-----DTVTNV------LNFIKLQKIDIIELQKSLSLEE 1890
Score = 35.4 bits (81), Expect = 0.047
Identities = 37/267 (13%), Positives = 69/267 (25%), Gaps = 81/267 (30%)
Query: 178 PLSLK--NFTNTLRMKPADDNAHRVIGGSQ-------ELPALVFGKEKKEEEKA-VELER 227
PL+L + + L + P SQ LP G +E EL
Sbjct: 8 PLTLSHGSLEHVLLV-PTASFFI----ASQLQEQFNKILPEPTEGFAADDEPTTPAEL-- 60
Query: 228 MKTDFVKMYSF--EELGDKLKKLRPEGLEGGFSLRELNERLMRLR-----VMEMNESNSK 280
K + + + L L E + ++ + N
Sbjct: 61 ----VGKFLGYVSSLVEPSKVGQFDQVLN--LCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 281 IGAGTISALRS-----SLARIQIEKE------EKARVQRINILEGFGG--TPEYLLHPPK 327
T +++ +A+ +K+ ++ FGG +
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD------- 167
Query: 328 EHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSESDCGSARVQIAQLTTKIKHLSSALHK 387
YF + EL R+ ++ G I + L
Sbjct: 168 -----DYF--E----------EL---RDLYQTYHVLVGDL---IKFSAETLSELIRTTLD 204
Query: 388 KDKHSRKGLQAMVQRRKRLLKYLRRTD 414
+K +GL +L++L
Sbjct: 205 AEKVFTQGLN--------ILEWLENPS 223
Score = 34.3 bits (78), Expect = 0.097
Identities = 51/314 (16%), Positives = 91/314 (28%), Gaps = 95/314 (30%)
Query: 1 MALHLFK--PKHRSLTNPSLIHLFST---SQNDNNDNNNNYSNSSLNSYFSDVKA-SLRK 54
M + L+K + + N + H T S D NN +L +F K +R+
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPV----NLTIHFGGEKGKRIRE 1686
Query: 55 QTPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPPIES-NSTESQSQSQTQ 113
N + + G +EI + + T ++T+ TQ
Sbjct: 1687 ----NYSAMIFETIVDGKLKTEKIFKEINEHSTSY----TFRSEKGLLSATQF-----TQ 1733
Query: 114 ------SQSQSQHISFQELYKRNTVNET-------------LASKPSGKPSFE-AIR--- 150
++ F++L + + LAS + S E +
Sbjct: 1734 PALTLMEKAA-----FEDLKSKGLIPADATFAGHSLGEYAALAS-LADVMSIESLVEVVF 1787
Query: 151 --------ESLRQMRARSNNDNNNNNRGNGVKNSDPLSLKNFTNTLRMK------PADDN 196
R RSN N G + +L+ + + + N
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 197 AHR---VIGGSQELPALVFGKEKKEEEKAVELERMKTDFVKMYSFEELGDKLKKLRPEGL 253
V G +L AL + + +F+K L+K+ L
Sbjct: 1848 VENQQYVAAG--DLRAL---------DTVTNV----LNFIK----------LQKIDIIEL 1882
Query: 254 EGGFSLRELNERLM 267
+ SL E+ L
Sbjct: 1883 QKSLSLEEVEGHLF 1896
Score = 29.2 bits (65), Expect = 3.1
Identities = 28/166 (16%), Positives = 55/166 (33%), Gaps = 34/166 (20%)
Query: 11 RSLT--NPSLIHLFSTSQNDNNDNNNNYSNSS-LNSYF-SDVKASLRKQTPPNQTTSSSS 66
R LT + SL H+ ++ +S L F + ++ T+ +
Sbjct: 7 RPLTLSHGSLEHVLLVP-------TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 67 --------SSSRGPPSKVASLEEI-RRNLAEFRQRSTVPPPIESNS----TESQSQSQTQ 113
SS PSKV +++ L EF +E N Q
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY-----LEGNDIHALAAKLLQENDT 114
Query: 114 SQSQSQHISFQELYKRNTVNETLASKPSGKPSFEAIRESLRQMRAR 159
+ +++ + + + A +P K S A+ ++ + A+
Sbjct: 115 TLVKTKEL-IKNYITARIM----AKRPFDKKSNSALFRAVGEGNAQ 155
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.9 bits (79), Expect = 0.017
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 20/46 (43%)
Query: 180 SLKNFTNTLRMKPADDNAHRVIGGSQELPALVFGKEKKEEEKA-VE 224
+LK +L++ ADD+A PAL KA +E
Sbjct: 21 ALKKLQASLKLY-ADDSA----------PALAI--------KATME 47
>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O
3jyv_O* 1ysh_E 1s1h_O
Length = 151
Score = 31.0 bits (70), Expect = 0.38
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 2/43 (4%)
Query: 371 IAQLTTKIKHLSSALHKKDKHSRKGLQAMVQRRKRLLKYLRRT 413
I + + KHL ++KDK ++ L + R RL +Y R
Sbjct: 92 IKKAVSVRKHLER--NRKDKDAKFRLILIESRIHRLARYYRTV 132
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Length = 153
Score = 30.6 bits (69), Expect = 0.48
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 371 IAQLTTKIKHLSSALHKKDKHSRKGLQAMVQRRKRLLKYLRRTD 414
I + + KHL ++KDK S+ L + R RL +Y +
Sbjct: 94 IKKALSIRKHLEK--NRKDKDSKYRLILVESRIHRLSRYYKLNQ 135
>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP
+ L-histidine tRNA(His)-> AMP + PPI +
L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP:
c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A
Length = 421
Score = 31.4 bits (72), Expect = 0.66
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 230 TDFVK--MYSFEELGDKLKKLRPEG 252
TD V+ M++F++ G + LRPEG
Sbjct: 58 TDIVRKEMFTFQDRGGRSLTLRPEG 82
>1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet,
ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1
d.104.1.1
Length = 420
Score = 31.0 bits (71), Expect = 0.75
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 230 TDFVK--MYSFEELGDKLKKLRPEG 252
TD V+ MY+F++ GD+ LRPEG
Sbjct: 57 TDVVQKEMYTFKDKGDRSITLRPEG 81
>1htt_A Histidyl-tRNA synthetase; complex (tRNA synthetase/His-adenylate),
aminoacyl-tRNA synthase, ligase; HET: HIS AMP; 2.60A
{Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1kmm_A*
1kmn_A* 2el9_A*
Length = 423
Score = 30.6 bits (70), Expect = 0.95
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 230 TDFVK--MYSFEELGDKLKKLRPEG 252
TD V+ MY+FE+ LRPEG
Sbjct: 59 TDVVEKEMYTFEDRNGDSLTLRPEG 83
>1tdj_A Biosynthetic threonine deaminase; allostery, cooperative, tetramer,
regulation, pyridoxal PHOS isoleucine biosynthesis; HET:
PLP; 2.80A {Escherichia coli} SCOP: c.79.1.1 d.58.18.2
d.58.18.2
Length = 514
Score = 30.7 bits (70), Expect = 1.1
Identities = 20/99 (20%), Positives = 31/99 (31%), Gaps = 12/99 (12%)
Query: 180 SLKNFTNTLRMKPADDNA----HRVIGGSQELPALVFGKEKKEEEKAVELERMKTDFVKM 235
S F L + +R + + EE+ L+ +
Sbjct: 351 SFLKFCQLL----GGRSVTEFNYRFADAKNACIFVGVRLSRGLEERKEILQMLND---GG 403
Query: 236 YSFEEL-GDKLKKLRPEGLEGGFSLRELNERLMRLRVME 273
YS +L D++ KL + GG L ERL E
Sbjct: 404 YSVVDLSDDEMAKLHVRYMVGGRPSHPLQERLYSFEFPE 442
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 30.2 bits (69), Expect = 1.6
Identities = 13/111 (11%), Positives = 34/111 (30%), Gaps = 5/111 (4%)
Query: 197 AH----RVIGGSQELPALVFGKEKKEEEKAVELERMKTDFVKMYSFEELGDKLKKLRPEG 252
++I G Q+L G K+ +K + + E L +
Sbjct: 209 GVKYTQQIIQGIQQLVKET-GVTKRTPQKLFTPSPEIVKYTHKLAMERLYAVFTDYEHDK 267
Query: 253 LEGGFSLRELNERLMRLRVMEMNESNSKIGAGTISALRSSLARIQIEKEEK 303
+ ++ ++ + E++ + + + + R + E K
Sbjct: 268 VSRDEAVNKIRLDTEEQLKEKFPEADPYEIIESFNVVAKEVFRSIVLNEYK 318
>1z7m_A ATP phosphoribosyltransferase regulatory subunit; ATP-PRT,
histidine biosynthesis, hiszg, alloste evolution; 2.90A
{Lactococcus lactis} SCOP: d.104.1.1 PDB: 1z7n_A*
Length = 344
Score = 29.1 bits (66), Expect = 2.6
Identities = 6/25 (24%), Positives = 10/25 (40%), Gaps = 2/25 (8%)
Query: 230 TDFV--KMYSFEELGDKLKKLRPEG 252
F KM+ F + + LR +
Sbjct: 77 KTFNQEKMFQFIKHEGQSITLRYDF 101
>1mv3_A MYC box dependent interacting protein 1; tumor suppressor,
endocytosis/exocytosis complex; NMR {Homo sapiens} SCOP:
b.34.2.1
Length = 213
Score = 28.5 bits (62), Expect = 3.7
Identities = 11/65 (16%), Positives = 22/65 (33%)
Query: 56 TPPNQTTSSSSSSSRGPPSKVASLEEIRRNLAEFRQRSTVPPPIESNSTESQSQSQTQSQ 115
P T + P + ++ ++ R+ VPPP + ++ Q Q S
Sbjct: 2 GSPAATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSL 61
Query: 116 SQSQH 120
+
Sbjct: 62 FEDTF 66
>3pqu_A Transferrin binding protein B; lipoprotein, transferrin receptor,
iron acquisition, vaccine candidate, beta-barrel,
outermembrane; 2.10A {Actinobacillus suis}
Length = 570
Score = 28.8 bits (63), Expect = 4.8
Identities = 24/145 (16%), Positives = 43/145 (29%), Gaps = 14/145 (9%)
Query: 47 DVKASLRKQTPPNQTTSSSSSSSRGPPSKVASLEE---------IRRNLAEFRQRSTVPP 97
DV+ + + T+ + + ++ L E RRN A F +
Sbjct: 5 DVRPNQTAKAEKATTSYQDEETKKKTKEELDKLMEPTLGVEAKIPRRNRALFDKEGNRKA 64
Query: 98 PIESNSTESQSQSQTQSQSQSQHIS-FQELYKRNTVNETLASKPS----GKPSFEAIRES 152
++ S++Q I +EL + T S K + + +R
Sbjct: 65 TPDTTDELSEAQIMAIWNENIDEIPHLKELNDKTTSGLIYHSHDGKQEDKKRNLQYVRSG 124
Query: 153 LRQMRARSNNDNNNNNRGNGVKNSD 177
+ S N N KN
Sbjct: 125 YVFDESYSEIVKNKNGVPYIFKNGI 149
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A
{Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1
Length = 434
Score = 27.9 bits (63), Expect = 6.5
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 235 MYSFEELGDKLKKLRPEG 252
YSF + G + L PE
Sbjct: 65 TYSFVDKGGREVTLIPEA 82
>3dwb_A ECE-1, endothelin-converting enzyme 1; protein, disease mutation,
glycoprotein, hirschsprung diseas hydrolase, membrane,
metal-binding; HET: 5HD RDF; 2.38A {Homo sapiens}
Length = 670
Score = 28.1 bits (63), Expect = 6.8
Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 11/56 (19%)
Query: 331 VEKYFHPDNMSSAEKMKIELAKVREEFK--------MSESDCGSARVQIAQLTTKI 378
V+ F D+ S A ++ + ++++ F+ M E SA+ + + I
Sbjct: 352 VKATFAEDSKSIATEI---ILEIKKAFEESLSTLKWMDEETRKSAKEKADAIYNMI 404
>1r1h_A Neprilysin; enkephalinase, glycoprotein, metalloprotease,
hydrolase; HET: NAG BIR; 1.95A {Homo sapiens} SCOP:
d.92.1.4 PDB: 1dmt_A* 1r1i_A* 1r1j_A* 1y8j_A* 2qpj_A*
2yb9_A*
Length = 696
Score = 28.2 bits (63), Expect = 7.1
Identities = 11/56 (19%), Positives = 20/56 (35%), Gaps = 11/56 (19%)
Query: 331 VEKYFHPDNMSSAEKMKIELAKVREEFK--------MSESDCGSARVQIAQLTTKI 378
VE F ++ E + +A++RE F M A + + +I
Sbjct: 374 VEAAFAGESKHVVEDL---IAQIREVFIQTLDDLTWMDAETKKRAEEKALAIKERI 426
>2kxe_A DNA polymerase II small subunit; D-family, archara, helical BU
transferase; HET: DNA; NMR {Pyrococcus horikoshii}
Length = 75
Score = 25.9 bits (56), Expect = 7.2
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 321 YLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKMSES 362
YL+ P +L+ +F+ S E +K AK RE F + +
Sbjct: 16 YLITPSAYYLLVGHFNEGKFSLIELIK--FAKSRETFIIDDE 55
>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl
MAD, two-component systems, transferase; HET: ADP; 1.9A
{Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB:
3dge_A*
Length = 258
Score = 27.5 bits (62), Expect = 8.9
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 215 EKKEEEKAVELERMKTDFV 233
E KE E+ ++RMKT+F+
Sbjct: 6 ESKELERLKRIDRMKTEFI 24
>2py6_A Methyltransferase FKBM; YP_546752.1, structural genomics, JO center
for structural genomics, JCSG, protein structure INI
PSI-2; 2.15A {Methylobacillus flagellatus KT} SCOP:
c.66.1.56
Length = 409
Score = 27.7 bits (61), Expect = 9.2
Identities = 11/116 (9%), Positives = 29/116 (25%), Gaps = 19/116 (16%)
Query: 145 SFEAIRESLRQMRARSNNDNNNNNRGNGVKNSDPLSLKNFTNTLRMKPADDNAHRVIGGS 204
E R +L+ ++ + N + T + + V
Sbjct: 257 MIEPDRINLQTLQNVLRRYTDTNFASR-ITVH-GCGAGENTIRVPFNHEGGHGGFVKPAD 314
Query: 205 QELPALVFGKEKKEEEKAV---ELERMKTDFVKM-------YSFEELGDKLKKLRP 250
+ E + ++ F+KM + + + + +P
Sbjct: 315 AD-------HEPADLIDVRPIDDIIDDAPTFIKMDIEGSELSALKGARRAISEHKP 363
>2kho_A Heat shock protein 70; molecular chaperone, HSP70, peptide binding,
protein folding, acetylation, ATP-binding, cell inner
membrane; NMR {Escherichia coli}
Length = 605
Score = 27.6 bits (62), Expect = 9.5
Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 10/89 (11%)
Query: 300 KEEKARVQRINILEGFGGTPEYLLHPPKEHLVEKYFHPDNMSSAEKMKIELAKVREEFKM 359
++ VQ N + LLH ++ + E D + + +K IE A E +
Sbjct: 527 RKFDELVQTRNQGDH-------LLHSTRKQVEE---AGDKLPADDKTAIESALTALETAL 576
Query: 360 SESDCGSARVQIAQLTTKIKHLSSALHKK 388
D + ++ +L + L ++
Sbjct: 577 KGEDKAAIEAKMQELAQVSQKLMEIAQQQ 605
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
0.310 0.126 0.343
Gapped
Lambda K H
0.267 0.0472 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,188,576
Number of extensions: 361157
Number of successful extensions: 823
Number of sequences better than 10.0: 1
Number of HSP's gapped: 810
Number of HSP's successfully gapped: 49
Length of query: 437
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 341
Effective length of database: 4,021,377
Effective search space: 1371289557
Effective search space used: 1371289557
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 59 (27.1 bits)