RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7791
(551 letters)
>1h2v_C 80 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14 a.118.1.14 PDB: 1n52_A* 1n54_A
3fex_A 3fey_A 1h6k_A 1h2t_C* 1h2u_A*
Length = 771
Score = 148 bits (373), Expect = 5e-38
Identities = 58/516 (11%), Positives = 140/516 (27%), Gaps = 77/516 (14%)
Query: 50 QRISWETLKKSIHGSVNKVN-------TGNIGIIARKLFQENIIRGRGLLTRTILQAQAA 102
+ + + + KV N+ +A + + ++ + + R +
Sbjct: 1 KTSDANETEDHLESLICKVGEKSACSLESNLEGLA-GVLEADLPNYKSKILRLLCTVARL 59
Query: 103 SPTFTNVYAALVDIINSKFPSIGELLLNRCIQQFKRSFKRNDKALCINSVTFIAHLVNQQ 162
P +Y LV ++N++ + G + I+Q K S K N+ + V F++ LVN
Sbjct: 60 LPEKLTIYTTLVGLLNARNYNFGGEFVEAMIRQLKESLKANNYNEAVYLVRFLSDLVNCH 119
Query: 163 VAHEIIVLEILTLLVETPTNDSDFSLEPYSKHKLHHLRSLMCMPLWWISSIQSFQALESF 222
V ++ + V + P + + L +P +
Sbjct: 120 VIAAPSMVAMFENFVSVTQEEDV----PQVRRDWYVYAFLSSLP---------------W 160
Query: 223 FSTDVYNSSKGKLEKRVQYMIEVLAQVRKDNFKDFPDVIEDLDLVPEE---DKFTHLMTL 279
++Y ++++ L + +K + D EE + + L
Sbjct: 161 VGKELYEKKDAEMDRIFANTESYLKRRQKTHVPMLQVWTADKPHPQEEYLDCLWAQIQKL 220
Query: 280 DGVKDTQDILNVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEG 339
+ + + YL + + L D +
Sbjct: 221 KKDRWQERHILRP-----YLAFDSILCEALQHNLPPFTPPPHTEDSVYPMPRVIFRMFDY 275
Query: 340 EKENKETIIDNTETNLVALRRTIYLTIHSSLDFE--ECAHKLLRMQLKPGQESELCHIVH 397
+ + ++ + + + I S E CA +L+ K
Sbjct: 276 TDDPEGPVMPGSHSVERFVIEENLHCIIKSHWKERKTCAAQLVSYPGKNKIPLNYH---I 332
Query: 398 IDTSLWGLFGDQL-RTYEKFFGLLAQRFCQINKMYVAP-LEQIFRESYSTVHRLDINKLR 455
++ LF + + L C++ + L Q Y + ++
Sbjct: 333 VEVIFAELFQLPAPPHIDVMYTTLLIELCKLQPGSLPQVLAQATEMLYMRLDTMN----- 387
Query: 456 DDVCVINVVVKINGLTRLQFLYLSSNVVSNYDKLRNVAKFFAHQLFTDAIGWHVLSCIHL 515
+ +F+H L W
Sbjct: 388 ------------------------------TTCVDRFINWFSHHLSNFQFRWSWEDWSDC 417
Query: 516 NEEETTSSGRIFIKILFQELSEYMGLSKLNQKIKDP 551
++ S F++ + ++ ++ +
Sbjct: 418 LSQDPESPKPKFVREVLEKCMRLSYHQRILDIVPPT 453
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP:
a.118.1.14
Length = 260
Score = 71.0 bits (173), Expect = 6e-14
Identities = 33/245 (13%), Positives = 84/245 (34%), Gaps = 55/245 (22%)
Query: 53 SWETLKKSIHGSVNKVNTGNIGIIARKLFQENIIRGRGL--LTRTILQAQAASPTFTNVY 110
+ L + + +NK+ + +++ + L + + + P+F+ Y
Sbjct: 7 KTQELFRKVRSILNKLTPQMFNQLMKQVSGLTVDTEERLKGVIDLVFEKAIDEPSFSVAY 66
Query: 111 AALVDIINSKFPSIGE----------LLLNRCIQQFKRS--------------------- 139
A + + + + + LLLNRC ++F++
Sbjct: 67 ANMCRCLVTLKVPMADKPGNTVNFRKLLLNRCQKEFEKDKADDDVFEKKQKELEAASAPE 126
Query: 140 -----------FKRNDKALCINSVTFIAHLVNQQVAHEIIVLEILTLLVETPTNDSDFSL 188
K + I ++ FI L ++ E I+ + + L++ +S
Sbjct: 127 ERTRLHDELEEAKDKARRRSIGNIKFIGELFKLKMLTEAIMHDCVVKLLKNHDEES---- 182
Query: 189 EPYSKHKLHHLRSLMCMPLWWISSIQSFQALESFFSTDVYNSSKGKLEKRVQYMIEVLAQ 248
L L L+ + ++ ++ +F+ + K R+++M++ +
Sbjct: 183 -------LECLCRLLTTIGKDLDFEKAKPRMDQYFNQMEKIVKERKTSSRIRFMLQDVID 235
Query: 249 VRKDN 253
+R N
Sbjct: 236 LRLCN 240
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation,
ATP-binding, phosphoprotein, protein biosynthesis,
translation regulation; HET: AMP; 2.6A {Saccharomyces
cerevisiae} PDB: 2vsx_E*
Length = 284
Score = 58.8 bits (141), Expect = 1e-09
Identities = 35/286 (12%), Positives = 88/286 (30%), Gaps = 64/286 (22%)
Query: 23 KTGGAYIPPAKLKLMQQSISDKSSVEYQRISWETLKKSIHGSVNKVNTGNIGIIARKLFQ 82
+ ++P K K ++ ++ E + + +++ + +NK+ I+ ++
Sbjct: 4 PSANRWVPKFKSKKTEKKLAPDGKTE--LLDKDEVERKMKSLLNKLTLEMFDAISSEILA 61
Query: 83 -----ENIIRGRGL--LTRTILQAQAASPTFTNVYAALVDII---------------NSK 120
G L + I P ++++YA L + +
Sbjct: 62 IANISVWETNGETLKAVIEQIFLKACDEPHWSSMYAQLCGKVVKELNPDITDETNEGKTG 121
Query: 121 FPSIGELLLNRCIQQFKRSFKRNDKAL------------------------CINSVTFIA 156
+ L+ RC +F + + + V FI
Sbjct: 122 PKLVLHYLVARCHAEFDKGWTDKLPTNEDGTPLEPEMMSEEYYAAASAKRRGLGLVRFIG 181
Query: 157 HLVNQQVAHEIIVLEILTLLVETPTNDSDFSLEPYSKHKLHHLRSLM---------CMPL 207
L + ++ E L++ T+ + L + L+
Sbjct: 182 FLYRLNLLTGKMMFECFRRLMKDLTDSPS-------EETLESVVELLNTVGEQFETDSFR 234
Query: 208 WWISSIQSFQALESFFSTDVYNSSKGKLEKRVQYMIEVLAQVRKDN 253
++++ Q L+S F K+ R+++ + + ++R D
Sbjct: 235 TGQATLEGSQLLDSLFGILDNIIQTAKISSRIKFKLIDIKELRHDK 280
>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 = 58.3 bits (140), Expect = 5e-09
Identities = 81/537 (15%), Positives = 176/537 (32%), Gaps = 132/537 (24%)
Query: 38 QQSISDKSSVEYQRISWETLKKSIHGSVNKVNTGNIGIIARKLFQ----ENII----RGR 89
Q S+ + +E + + + +V+++ + + L + +N++ G
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP--YLKLRQALLELRPAKNVLIDGVLGS 161
Query: 90 GLLTRTILQAQAASPT------FTNVYAALVDIINSKFP-SIGELLLNRCIQQFKRSFKR 142
G +T + ++ +++ N P ++ E+L Q R
Sbjct: 162 G---KTWVALDVCLSYKVQCKMDFKIF--WLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216
Query: 143 NDKA----LCINSVT--FIAHLVNQQVAHEIIVL------EIL--------TLLVETPTN 182
+D + L I+S+ L ++ + ++VL + LL
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 183 DSDFSLEPYSKHKL--HHLRSLMCMPLWWISSIQSFQALESFFSTDVYNSSKGKLEKRVQ 240
+DF + H HH +L + ++S + L + V
Sbjct: 277 VTDFLSAATTTHISLDHHSMTL------------TPDEVKSLLL-KYLDCRPQDLPREVL 323
Query: 241 ----YMIEVLAQVRKDNFKDFPDVIEDLDLVPEEDKFTHLM--TLDGVK--DTQDI---L 289
+ ++A ++ +D ++ V DK T ++ +L+ ++ + + + L
Sbjct: 324 TTNPRRLSIIA----ESIRDGLATWDNWKHV-NCDKLTTIIESSLNVLEPAEYRKMFDRL 378
Query: 290 NVFQYD---PEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKET 346
+VF P L+ ++ + + ++ + S E+ KE+ +
Sbjct: 379 SVFPPSAHIPTILL----------SLIWFDVIKSDV-MVVVNKLHKYSLVEKQPKESTIS 427
Query: 347 IIDNTETNLVALRRTIYLTIHSSLDFEECAHKLLRMQLKPGQESELCHIVHIDTSLWGLF 406
I IYL + L+ E H+ + + + L
Sbjct: 428 IPS------------IYLELKVKLENEYALHRSIVDHYNIPKTFD----------SDDLI 465
Query: 407 GDQLRTYEKFFGLLAQRFCQINKMYVAPLEQIFRESYSTVHRLDI----NKLRDDVCVIN 462
L Y F+ + I +FR + LD K+R D N
Sbjct: 466 PPYLDQY--FYSHIGHHLKNIEH---PERMTLFRMVF-----LDFRFLEQKIRHDSTAWN 515
Query: 463 VVVKI-NGLTRLQFL--YLSSNVVSNYDKLRNVAKFFAHQLFTDAIGWHVLSCIHLN 516
I N L +L+F Y+ N Y++L N F + I +++ + +
Sbjct: 516 ASGSILNTLQQLKFYKPYICDN-DPKYERLVNAILDFLPK-----IEENLICSKYTD 566
Score = 51.8 bits (123), Expect = 5e-07
Identities = 71/535 (13%), Positives = 143/535 (26%), Gaps = 166/535 (31%)
Query: 133 IQQFKRSFKRN-------DKALCINSVTFIAHLVNQQVAHEIIVLEILTLLVETPTND-S 184
+ F+ +F N D I S I H++ + A + + L+
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR-LFWTLLSKQEEMVQ 80
Query: 185 DF---SLEP-YSKHKLHHLRSLMCMPLWWISSIQSFQALESFFSTDVYNSSKGKLEKRVQ 240
F L Y + +S I++ + + T +Y + +L Q
Sbjct: 81 KFVEEVLRINYK---------------FLMSPIKT-EQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 241 YMIEVLAQV-RKDNFKDFPDVIEDLDLVPEEDKFTHLM--------TLDGVKDTQDIL-- 289
+ V R + + +L P ++ + LD +
Sbjct: 125 VFAKY--NVSRLQPYLKLRQALLELR--PAKNVLIDGVLGSGKTWVALDVCLS-YKVQCK 179
Query: 290 ---NVF------QYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEG- 339
+F PE ++ E L +I + + + +
Sbjct: 180 MDFKIFWLNLKNCNSPETVL--EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 340 --EKENKET--IIDNTETNLVA----LR-RTIYLT----IHSSLDFEECAHKLLRMQLKP 386
K + ++ N + L + + T + L H L
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 387 GQESE----LCHIVHIDTS------------LWGLFGDQLR----TYEKFFGLLAQRFCQ 426
E L + + + +R T++ + + +
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 427 INKMYVAPLE-QIFRESYSTVHRLDINKLRDDV-----------------CVINVVVKI- 467
I + + LE +R+ + RL + V+ VV K+
Sbjct: 358 IIESSLNVLEPAEYRKMF---DRLSV--FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 468 ----------NGLTRLQFLYLS------------SNVVSNYDKLRNVAK----------- 494
+ +YL ++V +Y+ +
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472
Query: 495 FFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMGLSKLNQKIK 549
F++H IG H L I E T LF+ + ++ L QKI+
Sbjct: 473 FYSH------IGHH-LKNIEHPERMT----------LFRMV--FLDFRFLEQKIR 508
Score = 50.6 bits (120), Expect = 1e-06
Identities = 44/347 (12%), Positives = 93/347 (26%), Gaps = 105/347 (30%)
Query: 251 KDNFKDF-PDVIEDLDLVPEEDKFTHLMTLDGVKDTQDILNVFQYDPE----YLMN--EE 303
KD F +++ D +D +++ ++ I+ D L
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILS---KEEIDHIIM--SKDAVSGTLRLFWTLLS 73
Query: 304 KYTTLRREILGDEDEDD----------EDGDDEEDEDEEESEAEEGEKEN---------K 344
K + ++ + + + E + + +N +
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR 133
Query: 345 ETIIDNTETNLVALRRTIYLTIH-------SSLDFEEC-AHKLLRMQLKPGQESELCHIV 396
L+ LR + I + + + C ++K+ + +
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM--DFK-------I 184
Query: 397 HIDTSLWGLFGDQLRTYEKFFGLLAQRFC-QINKMYVAPLEQIFRESYSTVHRLDINKLR 455
W + E +L Q+ QI+ + + + +L I+ ++
Sbjct: 185 F-----WLNLK-NCNSPETVLEML-QKLLYQIDPNWTSRSDHSSNI------KLRIHSIQ 231
Query: 456 DDVCVINVVVKINGLTRLQFLYLSSNVVSNYDKLRNV-----AKFFAHQ---LFT----- 502
L+ L S + L NV F L T
Sbjct: 232 A---------------ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 503 --DAIG---WHVLSCIH----LNEEETTSSGRIFIKIL---FQELSE 537
D + +S H L +E S + +K L Q+L
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKS---LLLKYLDCRPQDLPR 320
>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 = 56.2 bits (135), Expect = 2e-08
Identities = 48/309 (15%), Positives = 83/309 (26%), Gaps = 102/309 (33%)
Query: 305 YTTLRREILGDEDEDDEDGDDEEDEDEEESEAE-----------EGEKENKETIIDNTET 353
+ L+ + E + +DE + AE E
Sbjct: 30 ASQLQEQFNKILPEPT---EGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNL 86
Query: 354 NLVALRRTIYLT---IHS---SLDFEE-----CAHKLLR----------MQLKPGQESEL 392
L YL IH+ L E +L++ S L
Sbjct: 87 CLTEFENC-YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 393 CHIVHI-DTSLWGLFGDQ---------LRT-YEKFFGLLAQRFCQINKMYVAPLEQIFRE 441
V + L +FG Q LR Y+ + L+ + L ++ R
Sbjct: 146 FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET----LSELIRT 201
Query: 442 SYST----VHRLDINK-LR--------DDVCVINVVVKINGLTRLQFL-YLSSNVVSNYD 487
+ L+I + L D + I + + G+ Q Y+ + + +
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI--QLAHYVVTAKLLGFT 259
Query: 488 --KLRN-------------VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILF 532
+LR+ A A W E S R I +LF
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAE-----TDSW----------ESFFVSVRKAITVLF 304
Query: 533 QELSEYMGL 541
++G+
Sbjct: 305 -----FIGV 308
Score = 55.1 bits (132), Expect = 5e-08
Identities = 97/601 (16%), Positives = 178/601 (29%), Gaps = 204/601 (33%)
Query: 62 HGSVN---KVNTGNIGIIARKL---FQENIIRGRGLLTRTILQAQAASPT--------FT 107
HGS+ V T IA +L F + L T A PT F
Sbjct: 13 HGSLEHVLLVPT-ASFFIASQLQEQFNKI------LPEPTEGFAADDEPTTPAELVGKFL 65
Query: 108 NVYAALVDIINSKFPSIGELLLNRCIQQFKRSF-KRNDKALCINSVTFIAHLVNQQVAHE 166
++LV+ SK ++L C+ +F+ + + ND I++ A L+ +
Sbjct: 66 GYVSSLVE--PSKVGQFDQVLNL-CLTEFENCYLEGND----IHA--LAAKLLQENDTTL 116
Query: 167 IIVLEILTLLVETPTNDSDFSLEPYSKHKLHHLRSLMCMPLWWISSIQS--------F-- 216
+ E++ + + P+ K S L+ ++ F
Sbjct: 117 VKTKELIKNYITA----RIMAKRPFDKKS----NS----ALF--RAVGEGNAQLVAIFGG 162
Query: 217 Q-ALESFFS--TDVYNSSKGKLEKRVQYMIEVL---AQVRKDNFKDFP---DV---IEDL 264
Q + +F D+Y + + +++ E L + D K F ++ +E+
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP 222
Query: 265 DLVPEEDKFTHL---MTLDGVKDTQ-----DILNVFQYDPEYLMNEEKYTTLRREIL--- 313
P++D + L GV Q + + P L + K T + L
Sbjct: 223 SNTPDKDYLLSIPISCPLIGV--IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA 280
Query: 314 -----GDEDEDDEDGDD----------------------EEDEDEEESEAEEGE------ 340
D E E+ E EG
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 341 -----KENKETIIDNTETNLVALRRTIYLTIHSSLDFEECAHKLLRMQLKPGQESELCHI 395
+E + ++ T ++L + + +++ + +
Sbjct: 341 ISNLTQEQVQDYVNKTNSHL-PAGKQVEISLVNGAK---------------------NLV 378
Query: 396 VHIDT----SLWGLFGDQLRTYEKFFGL------LAQR-------FCQINKMYVAPLEQI 438
V + SL+GL LR + GL ++R F + +P
Sbjct: 379 V---SGPPQSLYGL-NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA----SP---- 426
Query: 439 FRESY--STVHRLDINKLRDDVCVINVVVKINGLTRLQF-LYLSSNVVSNYDKLR----N 491
F ++ D+ N V N +Q +Y + D LR +
Sbjct: 427 FHSHLLVPASDLIN-----KDLVKNN--VSFNA-KDIQIPVY---DTFDGSD-LRVLSGS 474
Query: 492 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILF--QELSEYMGLSKLNQKIK 549
+++ + + W E TT I + F S GL L + K
Sbjct: 475 ISERIVDCIIRLPVKW----------ETTTQFKATHI-LDFGPGGAS---GLGVLTHRNK 520
Query: 550 D 550
D
Sbjct: 521 D 521
Score = 41.2 bits (96), Expect = 0.001
Identities = 35/238 (14%), Positives = 61/238 (25%), Gaps = 72/238 (30%)
Query: 252 DNFKDFPDVIEDLDLVPEEDKFTHLMTLDGVKDTQDILNVFQYDPEYLMN---------- 301
K DV D H G IL++ +P L
Sbjct: 1637 KTSKAAQDVWNRAD--------NHFKDTYGF----SILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 302 EEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN----LVA 357
E Y+ + E + D E E +E S EK ++ T+ L
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEH-STSYTFRSEKG----LLSATQ-FTQPALTL 1738
Query: 358 LRRTIYLTI--------------HS------------SLDFEECAHKLLR------MQLK 385
+ + + + HS + E +++
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLV-EVVFYRGMTMQVAV 1797
Query: 386 PGQESELCH--IVHIDTSLWGLFGDQ--LRTYEKFFGLLAQRFCQI-NKMYVAPLEQI 438
P E + ++ I+ Q L+ + G +I N Y +Q
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN--YNVENQQY 1853
>3rk6_A Polyadenylate-binding protein-interacting protein; heat fold, PABP,
EIF4A, EIF3, translation regulator; 2.00A {Homo sapiens}
Length = 234
Score = 50.2 bits (119), Expect = 4e-07
Identities = 34/223 (15%), Positives = 66/223 (29%), Gaps = 32/223 (14%)
Query: 55 ETLKKSIHGSVNKV--NTGNIGIIARKL---FQENIIRGRGL--LTRTILQAQAASPTFT 107
TL + + +N + G+ + + L L I Q + P F+
Sbjct: 17 STLSEYVQDFLNHLTEQPGSFETEIEQFAETLNGCVTTDDALQELVELIYQQATSIPNFS 76
Query: 108 NVYAALVDIINSKFPSIGE------LLLNRCIQQFKRS-----FKRNDKALCINSVTFIA 156
+ A L + ++ + LLL RC +++ + V F+
Sbjct: 77 YMGARLCNYLSHHLTISPQSGNFRQLLLQRCRTEYEVKDQAAKGDEVTRKRFHAFVLFLG 136
Query: 157 HLVNQ---------QVAHEIIVLEILTLLVETPTNDSDFSLEPYSKHKLHHLRSLMCMPL 207
L +I+ + + LL +N D +L L L L
Sbjct: 137 ELYLNLEIKGTNGQVTRADILQVGLRELLNALFSNPMDDNLIC-----AVKLLKLTGSVL 191
Query: 208 WWISSIQSFQALESFFSTDVYNSSKGKLEKRVQYMIEVLAQVR 250
+ +E + V+ M+ L ++R
Sbjct: 192 EDAWKEKGKMDMEEIIQRIENVVLDANCSRDVKQMLLKLVELR 234
>2ayu_A Nucleosome assembly protein; histone chaperone; 3.00A
{Saccharomyces cerevisiae} SCOP: d.305.1.1 PDB: 2z2r_A
Length = 417
Score = 38.8 bits (89), Expect = 0.004
Identities = 8/31 (25%), Positives = 22/31 (70%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+++E+ ++ +DEE++D+ E ++GE ++
Sbjct: 371 EDEEEADEDEDEEEDDDHGLEDDDGESAEEQ 401
Score = 38.4 bits (88), Expect = 0.005
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 311 EILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
E DE+E DED D+EED+D + + E ++
Sbjct: 368 EFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQD 402
Score = 38.4 bits (88), Expect = 0.006
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 308 LRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
+ + +ED+E+ D++EDE+E++ E + D+
Sbjct: 361 TGAALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQDDFAGR 407
Score = 37.6 bits (86), Expect = 0.010
Identities = 11/41 (26%), Positives = 24/41 (58%)
Query: 305 YTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+T E +EDE++ D D++E+ED++ ++ + +E
Sbjct: 360 FTGAALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEE 400
Score = 37.6 bits (86), Expect = 0.010
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
DEDE+++D ED+D E +E ++ E
Sbjct: 378 EDEDEEEDDDHGLEDDDGESAEEQDDFAGRPE 409
Score = 36.1 bits (82), Expect = 0.025
Identities = 9/42 (21%), Positives = 24/42 (57%)
Query: 304 KYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+ T E++++E +DE++E++++ E+ + E+ E
Sbjct: 358 DWFTGAALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAE 399
Score = 35.3 bits (80), Expect = 0.045
Identities = 7/32 (21%), Positives = 18/32 (56%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+++E+D+D E+D+ E E ++ ++
Sbjct: 379 DEDEEEDDDHGLEDDDGESAEEQDDFAGRPEQ 410
Score = 34.5 bits (78), Expect = 0.091
Identities = 7/38 (18%), Positives = 20/38 (52%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
++++DE+ DD+ ++++ E+ E + + E
Sbjct: 376 ADEDEDEEEDDDHGLEDDDGESAEEQDDFAGRPEQAPE 413
>2zd7_A VPS75, vacuolar protein sorting-associated protein 75; histone
chaperone, VPS75, NAP1, nucleus, phosphoprotein; 1.85A
{Saccharomyces cerevisiae} PDB: 3q66_A* 3q68_A* 3c9d_A
3c9b_A 3q33_B* 3q35_B* 3dm7_A
Length = 264
Score = 37.0 bits (85), Expect = 0.011
Identities = 7/41 (17%), Positives = 18/41 (43%)
Query: 305 YTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
Y +R++ +E E D + ++D+ + ++E
Sbjct: 216 YAEAQRDLEDEEGESGLSADGDSEDDDGSLGEVDLPLSDEE 256
Score = 34.3 bits (78), Expect = 0.082
Identities = 6/37 (16%), Positives = 12/37 (32%)
Query: 310 REILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKET 346
EDE+ E G + + E++ +
Sbjct: 218 EAQRDLEDEEGESGLSADGDSEDDDGSLGEVDLPLSD 254
Score = 32.0 bits (72), Expect = 0.39
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 304 KYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
KY + L DE+ + D + ED++ S E + E
Sbjct: 214 KYYAEAQRDLEDEEGESGLSADGDSEDDDGSLGEVDLPLSDE 255
Score = 32.0 bits (72), Expect = 0.47
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKET 346
D + DD+ E + + E +K+
Sbjct: 231 GLSADGDSEDDDGSLGEVDLPLSDEEPSSKKR 262
Score = 30.5 bits (68), Expect = 1.2
Identities = 6/31 (19%), Positives = 13/31 (41%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENK 344
+ + ++D + D S+ E K+ K
Sbjct: 233 SADGDSEDDDGSLGEVDLPLSDEEPSSKKRK 263
Score = 30.5 bits (68), Expect = 1.4
Identities = 5/37 (13%), Positives = 12/37 (32%)
Query: 316 EDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
D ED + E + ++ + + + E
Sbjct: 219 AQRDLEDEEGESGLSADGDSEDDDGSLGEVDLPLSDE 255
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ
HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F*
1p84_F* 2ibz_H* 1kyo_F*
Length = 146
Score = 35.6 bits (81), Expect = 0.013
Identities = 12/40 (30%), Positives = 28/40 (70%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTET 353
+++E++ D D++EDEDE++ + ++ ++E +E + D E
Sbjct: 40 EEKEEENGDEDEDEDEDEDDDDDDDEDEEEEEEVTDQLED 79
Score = 29.5 bits (65), Expect = 1.6
Identities = 14/33 (42%), Positives = 22/33 (66%)
Query: 301 NEEKYTTLRREILGDEDEDDEDGDDEEDEDEEE 333
EEK E +++++D+D DD+EDE+EEE
Sbjct: 39 GEEKEEENGDEDEDEDEDEDDDDDDDEDEEEEE 71
>3fs3_A Nucleosome assembly protein 1, putative; protein localization,
histone recognition, structural analysis, CHA; 2.30A
{Plasmodium falciparum} PDB: 3hfd_A 3gyw_A 3gyv_A
Length = 359
Score = 36.8 bits (84), Expect = 0.016
Identities = 6/44 (13%), Positives = 9/44 (20%)
Query: 311 EILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
I+ E D E + + N D
Sbjct: 292 IIIESESNSIVSDVDSSYSSSENNSNYNSYESNNSAYNDENSNV 335
Score = 33.8 bits (76), Expect = 0.15
Identities = 9/50 (18%), Positives = 14/50 (28%)
Query: 305 YTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
Y + E + D D E+ + E N +TN
Sbjct: 289 YLGIIIESESNSIVSDVDSSYSSSENNSNYNSYESNNSAYNDENSNVDTN 338
Score = 32.6 bits (73), Expect = 0.30
Identities = 8/44 (18%), Positives = 15/44 (34%)
Query: 311 EILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
I+ D D ++ + + ES EN + + N
Sbjct: 300 SIVSDVDSSYSSSENNSNYNSYESNNSAYNDENSNVDTNEYDDN 343
Score = 28.0 bits (61), Expect = 8.2
Identities = 6/39 (15%), Positives = 14/39 (35%), Gaps = 2/39 (5%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTET 353
E++ + + E + + +E + DN E
Sbjct: 310 SSSENNSNYNSYESNNSAYN--DENSNVDTNEYDDNEEE 346
>3h0g_F DNA-directed RNA polymerases I, II, and III subunit rpabc2;
transcription, multi-protein complex, DNA- binding,
magnesium; 3.65A {Schizosaccharomyces pombe}
Length = 142
Score = 33.9 bits (77), Expect = 0.044
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
D +ED+ G D +EE E E ++ + +
Sbjct: 3 DYEEDEAFGMDGAVMEEEVDELEMIDENGQSQQGVSHP 40
Score = 33.1 bits (75), Expect = 0.094
Identities = 7/40 (17%), Positives = 18/40 (45%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
+EDE +E+ +E E + ++++ + E +
Sbjct: 5 EEDEAFGMDGAVMEEEVDELEMIDENGQSQQGVSHPGEPS 44
Score = 32.0 bits (72), Expect = 0.20
Identities = 8/47 (17%), Positives = 17/47 (36%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVALRR 360
G E++ D + DE+ + + E T+I + +
Sbjct: 14 GAVMEEEVDELEMIDENGQSQQGVSHPGEPSTTVITEDVASSKTAQS 60
Score = 31.6 bits (71), Expect = 0.26
Identities = 10/40 (25%), Positives = 15/40 (37%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
DE + EE+ DE E E G+ + + T
Sbjct: 7 DEAFGMDGAVMEEEVDELEMIDENGQSQQGVSHPGEPSTT 46
Score = 31.2 bits (70), Expect = 0.41
Identities = 8/52 (15%), Positives = 16/52 (30%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVALRRTIYLTI 366
D +E+ D+ E DE + + + TE + +
Sbjct: 13 DGAVMEEEVDELEMIDENGQSQQGVSHPGEPSTTVITEDVASSKTAQSGKAV 64
Score = 30.4 bits (68), Expect = 0.69
Identities = 8/42 (19%), Positives = 16/42 (38%)
Query: 311 EILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
E G + E+ DE + +E ++++G E
Sbjct: 8 EAFGMDGAVMEEEVDELEMIDENGQSQQGVSHPGEPSTTVIT 49
Score = 29.6 bits (66), Expect = 1.2
Identities = 5/38 (13%), Positives = 13/38 (34%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
E+++ D E+E + E + + +
Sbjct: 4 YEEDEAFGMDGAVMEEEVDELEMIDENGQSQQGVSHPG 41
Score = 29.3 bits (65), Expect = 1.9
Identities = 9/39 (23%), Positives = 16/39 (41%)
Query: 316 EDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
+ E+DE + EEE + E EN ++ +
Sbjct: 3 DYEEDEAFGMDGAVMEEEVDELEMIDENGQSQQGVSHPG 41
Score = 28.9 bits (64), Expect = 2.3
Identities = 5/41 (12%), Positives = 15/41 (36%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNL 355
+ D +EE ++ E + ++ + + T +
Sbjct: 8 EAFGMDGAVMEEEVDELEMIDENGQSQQGVSHPGEPSTTVI 48
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma
factor, transcription regulation; 2.60A {Escherichia
coli} SCOP: a.177.1.1
Length = 339
Score = 34.9 bits (80), Expect = 0.056
Identities = 35/155 (22%), Positives = 57/155 (36%), Gaps = 13/155 (8%)
Query: 280 DGVKDTQDILNVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEG 339
D++ F DP + T L ED DD++ +DEED D++ ++ +
Sbjct: 44 AEEARLSDLITGFV-DPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNS 102
Query: 340 EK-ENKETIIDNTETNLVALRRTIYLTIHSSLDFEECAHKL----LRMQLKPGQESELCH 394
E V R TI S +E KL + +L P Q L +
Sbjct: 103 IDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVN 162
Query: 395 IVHIDTSLWGLFGDQLRTYEKFFGLLAQRFCQINK 429
+ + D++RT E+ L C++ K
Sbjct: 163 SMRVMM-------DRVRTQERLIMKLCVEQCKMPK 190
>1twf_F ABC23, DNA-directed RNA polymerases I, II, and III 23 KD
polypeptide; transcription, mRNA, multiprotein complex;
HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP:
a.143.1.2 PDB: 1i3q_F 1i6h_F 1k83_F* 1nik_F 1nt9_F
1pqv_F 1r5u_F 1r9s_F* 1r9t_F* 1sfo_F* 1twa_F* 1twc_F*
1i50_F* 1twg_F* 1twh_F* 1wcm_F 1y1v_F 1y1w_F 1y1y_F
1y77_F* ...
Length = 155
Score = 33.1 bits (75), Expect = 0.11
Identities = 6/47 (12%), Positives = 14/47 (29%)
Query: 311 EILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVA 357
E D D + ++ +E + + E + K +
Sbjct: 13 ENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQ 59
Score = 33.1 bits (75), Expect = 0.11
Identities = 9/41 (21%), Positives = 18/41 (43%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
G+E+ +D D + DE+ E + + + E + T
Sbjct: 11 GNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTG 51
Score = 31.2 bits (70), Expect = 0.40
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 311 EILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
E D +E+ ED D E DEE E + K+ + T +
Sbjct: 6 EAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKT 47
Score = 28.9 bits (64), Expect = 2.6
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNL 355
D +E DG++ ++ + E ++E E K D T+
Sbjct: 3 DYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDA 43
Score = 27.7 bits (61), Expect = 5.8
Identities = 10/61 (16%), Positives = 23/61 (37%), Gaps = 9/61 (14%)
Query: 294 YDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTET 353
+D E+ +EE Y +E +DG+ + + G ++ ++ +T
Sbjct: 18 FDVEHFSDEETY---------EEKPQFKDGETTDANGKTIVTGGNGPEDFQQHEQIRRKT 68
Query: 354 N 354
Sbjct: 69 L 69
Score = 27.7 bits (61), Expect = 6.8
Identities = 9/62 (14%), Positives = 18/62 (29%)
Query: 294 YDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTET 353
Y+ + E + E DE+ +E ++ E + + N E
Sbjct: 4 YEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQHEQ 63
Query: 354 NL 355
Sbjct: 64 IR 65
>3u5c_H RP30, RP40, 40S ribosomal protein S7-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_H
Length = 190
Score = 33.1 bits (75), Expect = 0.20
Identities = 4/31 (12%), Positives = 5/31 (16%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
D D + NK
Sbjct: 119 TAVHDKILEDLVFPTEIVGKRVRYLVGGNKI 149
Score = 32.4 bits (73), Expect = 0.32
Identities = 1/31 (3%), Positives = 4/31 (12%)
Query: 316 EDEDDEDGDDEEDEDEEESEAEEGEKENKET 346
+ ++ E
Sbjct: 118 LTAVHDKILEDLVFPTEIVGKRVRYLVGGNK 148
>3l6v_A GYRA, DNA gyrase subunit A; gyrase A C-terminal domain, GYRA
C-terminal domain, DNA wrapping, beta-strand-bearing
proline, ATP-binding; HET: DNA; 2.19A {Xanthomonas
campestris PV}
Length = 370
Score = 33.0 bits (76), Expect = 0.27
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 299 LMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEG 339
L EK + R L E+ ED DE ++ EG
Sbjct: 332 LSKGEKLQAVER--LDASLEEPEDVVDEAVAITSDAPPAEG 370
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z
1pnu_T 1pny_T 1vor_W ...
Length = 237
Score = 32.4 bits (74), Expect = 0.30
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
G+ E+ + E D EE +AE E
Sbjct: 197 GELSEEAAEAVLEGDASLEEVKAEASEDNAGT 228
>1nvp_C Transcription initiation factor IIA beta chain; transcription
regulation, DNA, complex, transcription/DNA complex;
2.10A {Homo sapiens} SCOP: b.56.1.1
Length = 76
Score = 29.9 bits (67), Expect = 0.33
Identities = 7/30 (23%), Positives = 16/30 (53%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKEN 343
++ + +E+ + ED+ +E E + EN
Sbjct: 4 AEDGQVEEEPLNSEDDVSDEEGQELFDTEN 33
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 32.6 bits (74), Expect = 0.42
Identities = 24/151 (15%), Positives = 55/151 (36%), Gaps = 1/151 (0%)
Query: 213 IQSFQALESFFSTDVYNSSKGKLEKRVQYMIEVLAQVRKDNF-KDFPDVIEDLDLVPEED 271
++ F + + + + +LE+R + ++ K +F K F + + +++ D
Sbjct: 737 MEGFTDAATGEAKRGFMTVVSELEQRFPDPTSIESEKEKKDFVKLFGEYLRAENILQNYD 796
Query: 272 KFTHLMTLDGVKDTQDILNVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDE 331
+F L L + + + Y+ +E+ + D D + D
Sbjct: 797 EFATLKALQQIDLSDPVAVEKFKAEHYVDDEKFAELQTIRLPADRKIQDYRSAYNDIRDW 856
Query: 332 EESEAEEGEKENKETIIDNTETNLVALRRTI 362
+ E E +KE T D+ + L+
Sbjct: 857 QRREKEAEKKEKSTTDWDDVVFEVDLLKSQE 887
>2o8g_I IPP-2, protein phosphatase inhibitor 2; hydrolase-inhibitor comple;
2.50A {Mus musculus} PDB: 2o8a_I
Length = 206
Score = 31.7 bits (71), Expect = 0.46
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 1/54 (1%)
Query: 301 NEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
NE L R+ L +D D+D D+E E + E T D+ +
Sbjct: 150 NEGLNIKLARQ-LISKDLHDDDEDEEMAETADGDSMNVEESSQGSTTSDHLQHK 202
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 32.4 bits (74), Expect = 0.47
Identities = 6/35 (17%), Positives = 16/35 (45%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIID 349
++D E+ EE+ E + + + + +I+
Sbjct: 11 EDDYGSEEALSEENVHEASANPQPEDFHGIDIVIN 45
Score = 31.7 bits (72), Expect = 0.70
Identities = 7/33 (21%), Positives = 13/33 (39%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETI 347
E EDD ++ E+ + + E+ I
Sbjct: 8 LESEDDYGSEEALSEENVHEASANPQPEDFHGI 40
Score = 31.7 bits (72), Expect = 0.78
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 316 EDEDDEDGDDEEDEDEEESEAEEGEKENKETIID 349
+ +D+ G +E +E EA + ID
Sbjct: 8 LESEDDYGSEEALSEENVHEASANPQPEDFHGID 41
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 32.5 bits (74), Expect = 0.47
Identities = 10/50 (20%), Positives = 21/50 (42%)
Query: 310 REILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVALR 359
+I GD + D + E +E E ++ E E+E + ++ +
Sbjct: 14 YDIFGDGHDYDWALEIENEELENGNDNNEAEEEEIDEETGAIKSTKKKIS 63
>1zyi_A Methylosome subunit picln; PH domain, cell volume regulation, RNA
splicing, translation; NMR {Canis lupus familiaris}
Length = 171
Score = 31.3 bits (70), Expect = 0.47
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 317 DEDDEDGDDEEDEDEEESEAEEGEKE 342
D +DED DD + E+ + E+G++
Sbjct: 145 DPEDEDSDDYDGEEYDVEAHEQGQEN 170
Score = 30.6 bits (68), Expect = 0.92
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGE 340
EDED +D D EE + E + +E +
Sbjct: 146 PEDEDSDDYDGEEYDVEAHEQGQEND 171
Score = 30.2 bits (67), Expect = 0.97
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGE 340
D +++D D D E+ D E E +
Sbjct: 145 DPEDEDSDDYDGEEYDVEAHEQGQEN 170
>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome
condensation, condensin, SMC, N subunit, ABC-type
ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus
ducreyi} PDB: 3euk_A*
Length = 483
Score = 32.2 bits (72), Expect = 0.48
Identities = 26/183 (14%), Positives = 57/183 (31%), Gaps = 5/183 (2%)
Query: 279 LDGVKDTQDILNVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEE 338
L D + + ++ +LR +L + + D E E S
Sbjct: 188 LRSSSDRNKFYKLIEASLYGGISSVITKSLRDYLLPENSGVRQAFQDMEAALRENSG-GS 246
Query: 339 GEKENKETIIDNTETNLVALRRTI--YLTIHSSLDFEECAHKLLRMQLKPGQESELCHIV 396
G + E++ + + + I ++ F + L + ++ L +
Sbjct: 247 GGSISAESVANILRKTIQREQNRILQLNQGLQNIAFGQVKGVRLVVNIRDTHSILLNALS 306
Query: 397 HIDTSLWGLFGDQLRTYEKFFGLLAQRFCQINKMYVAPLEQIFRE--SYSTVHRLDINKL 454
LF Q ++ + +L +R ++ + I E Y L++ L
Sbjct: 307 DQHEQHKDLFESQKLSFSEALAMLYKRINPHIELGQRMPQTIGEELLDYRNYLDLEVETL 366
Query: 455 RDD 457
R
Sbjct: 367 RGA 369
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces
cerevisiae}
Length = 1030
Score = 32.2 bits (73), Expect = 0.49
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 310 REILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+I GD + D + E +E E ++ E E+E +
Sbjct: 17 YDIFGDGHDYDWALEIENEELENGNDNNEAEEEEID 52
>1jey_A KU70; double-strand DNA break repair, non-homologous END-joining,
protein/nucleic acid complex, alpha/beta domain, beta
barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.1
c.62.1.3 PDB: 1jeq_A* 3rzx_B
Length = 609
Score = 32.2 bits (72), Expect = 0.52
Identities = 5/35 (14%), Positives = 18/35 (51%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKETII 348
+ + D + EE+++E + + + ++++I
Sbjct: 5 ESYYKTEGDEEAEEEQEENLEASGDYKYSGRDSLI 39
>1qkl_A RPB6, DNA-directed RNA polymerase II 14.4 KD polypeptide;
transcription; NMR {Homo sapiens} SCOP: a.143.1.2
Length = 127
Score = 30.7 bits (69), Expect = 0.53
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 317 DEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
+++++ D ++ +D EE E + + +E +N E
Sbjct: 2 SDNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVE 37
Score = 28.8 bits (64), Expect = 2.3
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
+ED D D D+ +EDE + E E+E +E +
Sbjct: 4 NEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGE 43
>3gzr_A Uncharacterized protein with A NTF2-like fold; structural genomics,
joint center for struct genomics, JCSG, protein
structure initiative; HET: MSE GOL; 1.40A {Caulobacter
vibrioides}
Length = 146
Score = 30.8 bits (69), Expect = 0.57
Identities = 8/60 (13%), Positives = 23/60 (38%)
Query: 412 TYEKFFGLLAQRFCQINKMYVAPLEQIFRESYSTVHRLDINKLRDDVCVINVVVKINGLT 471
++ G+ + QI + A L+ IF++ + ++ + + V + +
Sbjct: 36 SWVNVVGMHWRGRDQIVFAHTAFLKTIFKDCKQELVTIEARTIAPGSALAVVTLIQDAYV 95
>3u5c_A 40S ribosomal protein S0-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_A 3o30_A 3o2z_A 3u5g_A 3jyv_B* 1s1h_B
Length = 252
Score = 31.0 bits (70), Expect = 0.70
Identities = 9/38 (23%), Positives = 13/38 (34%)
Query: 308 LRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
LR ++ D D EE E + E+ E
Sbjct: 184 LRGALVDRTQPWSIMPDLYFYRDPEEVEQQVAEEATTE 221
>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral
twinning, leucine-rich repeat protein, LRR, merohedral
twinning; 2.2A {Schizosaccharomyces pombe} SCOP:
c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A
Length = 386
Score = 31.6 bits (72), Expect = 0.70
Identities = 11/40 (27%), Positives = 22/40 (55%)
Query: 316 EDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNL 355
++ DD + +E+E++EE EAE E + + + + L
Sbjct: 338 DELDDMEELTDEEEEDEEEEAESQSPEPETSEEEKEDKEL 377
>1nh2_C Transcription initiation factor IIA large chain; transcription/DNA;
HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP:
b.56.1.1 PDB: 1ytf_C*
Length = 79
Score = 29.2 bits (65), Expect = 0.72
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKEN 343
D DE + DD +D+ E+G EN
Sbjct: 7 DTDEVGSELDDSDDDYLISEGEEDGPDEN 35
Score = 27.3 bits (60), Expect = 3.7
Identities = 4/35 (11%), Positives = 15/35 (42%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKETII 348
D D+ + ++ +D+ E + ++ ++
Sbjct: 4 ALLDTDEVGSELDDSDDDYLISEGEEDGPDENLML 38
>2xzm_B RPS0E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_B
Length = 241
Score = 31.0 bits (70), Expect = 0.81
Identities = 9/48 (18%), Positives = 20/48 (41%)
Query: 307 TLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
L ++ + D +++E+E EEG + +E + + E
Sbjct: 184 ELSKDEEWEVMVDLFYHKTLPTAEQKEAEEEEGAEGAEEKVAEVKEGE 231
>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal
nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO
MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G*
3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F*
Length = 288
Score = 31.2 bits (71), Expect = 0.85
Identities = 6/44 (13%), Positives = 17/44 (38%)
Query: 303 EKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKET 346
++ ++ + +D++DED D ++E+
Sbjct: 237 QEAIDFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTD 280
Score = 30.4 bits (69), Expect = 1.3
Identities = 8/45 (17%), Positives = 17/45 (37%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVALR 359
++ + +D +DE+D D S +E + + L
Sbjct: 244 QKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQEGDIHLE 288
Score = 28.5 bits (64), Expect = 5.8
Identities = 12/45 (26%), Positives = 22/45 (48%)
Query: 302 EEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKET 346
+E ++EI GD+DED++D D+ D+E + +
Sbjct: 237 QEAIDFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQ 281
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger,
ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A
Length = 1230
Score = 31.2 bits (69), Expect = 0.99
Identities = 22/137 (16%), Positives = 50/137 (36%), Gaps = 6/137 (4%)
Query: 196 LHHLRSLMCMPLWWISSIQSFQALESFFSTDVYNSSKGKLEKRVQYMIEVLAQVRKDNFK 255
+ HL S + ++ Q + + + + LEK + +++ + +
Sbjct: 215 IEHLLSELSKNDSMSTTRTYIQCIAAISRQAGHRIGE-YLEKIIPLVVKFCNVDDDELRE 273
Query: 256 DFPDVIEDLDLVPEEDKFTHLMTLDGVKDTQDILNVFQYDPEYLMNEEKYTTLRREILGD 315
E ++ + H+ T+ + L YDP Y ++E + G
Sbjct: 274 YCIQAFESFVRRCPKEVYPHVSTIINI-----CLKYLTYDPNYNYDDEDEDENAMDADGG 328
Query: 316 EDEDDEDGDDEEDEDEE 332
+D+D D+ D+D+
Sbjct: 329 DDDDQGSDDEYSDDDDM 345
>2gez_A L-asparaginase alpha subunit; isoaspartyl aminopeptidase,
NTN-hydrolase, autoproteolysis, taspase, sodium binding,
hydrolase; 2.60A {Lupinus luteus}
Length = 195
Score = 30.1 bits (68), Expect = 1.2
Identities = 9/54 (16%), Positives = 20/54 (37%)
Query: 294 YDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETI 347
D +L+ E L+ I + + D + + ++++E E I
Sbjct: 141 VDSSHLITAENVERLKLAIEANRVQVDYSQYNYPEPVKDDAEKELPLTNGDSQI 194
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 30.5 bits (69), Expect = 1.5
Identities = 17/82 (20%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 310 REILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVALRRTIYLTIHSS 369
+ + D+ E DE+ +EE +E+E E +ET++ + + T++ +
Sbjct: 8 KNLDLDDYELDEEPGEEELTEEQEEEFRSAVATVRETLLGVPISEK-EIADTVW---YYY 63
Query: 370 LDFEECAHKLLRMQLKPGQESE 391
D E+ + LL+ E
Sbjct: 64 FDVEKSVNYLLQKASSKAGAKE 85
>2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1
a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F*
2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H
Length = 423
Score = 30.6 bits (69), Expect = 1.5
Identities = 11/68 (16%), Positives = 24/68 (35%)
Query: 282 VKDTQDILNVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEK 341
++ Q+ + Q + E L + D +D+ D E+ + + E EE +
Sbjct: 11 AQEAQETEVLVQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLDLEEEEEDL 70
Query: 342 ENKETIID 349
+
Sbjct: 71 PIPKISTS 78
>3lu0_E DNA-directed RNA polymerase subunit omega; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_E*
Length = 91
Score = 27.9 bits (62), Expect = 2.2
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEK 341
D E E + E E + + EG +
Sbjct: 65 DVRERQEQQEQEAAELQAVTAIAEGRR 91
>2kmw_A Uncharacterized protein AT3G03773; protein structure initiative,
center for eukaryotic structural genomics, CESG,
structural genomics; NMR {Arabidopsis thaliana}
Length = 150
Score = 28.8 bits (64), Expect = 2.4
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 317 DEDDEDGDDEEDEDEEESEAEEGEKENKE 345
DED+E + +DE ++ E + +
Sbjct: 108 DEDEEVNSETASDDESAFVNQDSESSDDD 136
Score = 28.8 bits (64), Expect = 2.7
Identities = 8/38 (21%), Positives = 16/38 (42%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTE 352
DEDE+ +DE ++ E ++ + + E
Sbjct: 108 DEDEEVNSETASDDESAFVNQDSESSDDDGLLYLPDLE 145
>2e4s_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A;
GAF domain, structural genomics, NPPSFA; HET: MSE CMP;
2.10A {Homo sapiens} PDB: 2zmf_A*
Length = 189
Score = 29.3 bits (66), Expect = 2.5
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 174 TLLVETPTNDSDFSLEPYSKHKLHHLRSLMCMPL 207
L + D F+ E + R+++CMP+
Sbjct: 102 VLNIPDAYADPRFNREVDLYTG-YTTRNILCMPI 134
>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA
ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces
cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A*
1asz_A*
Length = 487
Score = 30.0 bits (68), Expect = 2.6
Identities = 15/106 (14%), Positives = 38/106 (35%), Gaps = 17/106 (16%)
Query: 251 KDNFKDFPDVIEDLDLVPEEDKFTHLMT--LDGVKDTQDILNVFQYDPEYLMNEEKYTTL 308
++++ + D + +L F + + +++ QY E + +
Sbjct: 278 EEHYHEVLDTLSEL--------FVFIFSELPKRFAHEIELVRK-QYPVEEFKLPKDGKMV 328
Query: 309 R------REILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETII 348
R E+L ++ D +D E+E+ +K + + I
Sbjct: 329 RLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLGKLVRDKYDTDFYI 374
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar
mRNA localization, translation; 1.90A {Drosophila
melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Length = 165
Score = 29.0 bits (65), Expect = 2.8
Identities = 10/47 (21%), Positives = 20/47 (42%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETNLVALRR 360
+E E DEDGD +E+++ +G ++ + +R
Sbjct: 10 AEEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRN 56
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.8
Identities = 10/50 (20%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 296 PEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+ L E + RE ++ + ++ D E+E E+ +K+ +E
Sbjct: 77 ADRLTQEPESIRKWRE---EQRKRLQELDAASKVMEQE-WREKAKKDLEE 122
>4ani_A Protein GRPE; chaperone cycle, complementary assay; 4.09A
{Geobacillus kaustophilus}
Length = 213
Score = 29.3 bits (66), Expect = 2.9
Identities = 8/55 (14%), Positives = 20/55 (36%)
Query: 300 MNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKETIIDNTETN 354
M + + + + + + + ++ + EEES E+ E + E
Sbjct: 1 MEQGEKQVMEQATYDEPEREQPIEEEAAPQPEEESGGVPLEEAGGEEAAEPAEKA 55
>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP
protein, ATA-box DNA, transcription/DNA complex; 2.50A
{Saccharomyces cerevisiae}
Length = 286
Score = 29.5 bits (64), Expect = 3.0
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 315 DEDEDDEDGDDEEDEDEEESEAEEGEKEN 343
D DE + DD +D+ E+G EN
Sbjct: 214 DTDEVGSELDDSDDDYLISEGEEDGPDEN 242
>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET:
NAG; 2.50A {Mus musculus}
Length = 312
Score = 29.5 bits (66), Expect = 3.1
Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 9/49 (18%)
Query: 435 LEQIFRESYSTVHRLDI--NKLRDDVCVINVVVKINGLTRLQFLYLSSN 481
L+Q+ + + + LD+ N+L + L ++ L L N
Sbjct: 265 LKQVPKGLPAKLSVLDLSYNRLDR-------NPSPDELPQVGNLSLKGN 306
>3aal_A Probable endonuclease 4; endoiv, DNA repair, base excision repair,
TIM barrel, DNA DA endonuclease, hydrolase,
metal-binding; 1.60A {Geobacillus kaustophilus} PDB:
1xp3_A
Length = 303
Score = 29.4 bits (66), Expect = 3.1
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 2/33 (6%)
Query: 484 SNYDKLRNVAKFFAHQLFTDAIGWHVLSCIHLN 516
+ YD + + F IG L +H+N
Sbjct: 190 AGYDIVNDFDGVLEE--FDRIIGLGRLKVLHIN 220
>1ps9_A 2,4-dienoyl-COA reductase; iron-sulfur, TIM barrel, flavodoxin,
flavin, electron transfer, hydride transfer,
oxidoreductase; HET: FAD FMN NAP MDE; 2.20A {Escherichia
coli} SCOP: c.1.4.1 c.3.1.1 c.4.1.1
Length = 671
Score = 29.6 bits (67), Expect = 3.2
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 9/46 (19%)
Query: 219 LESFFS------TDVYNSSKGKLEKRVQYMIEVLAQVRKDNFKDFP 258
+ F + +D + G R+++ +EV+ VR+ DF
Sbjct: 168 INEFLTLRTNQRSDQWG---GDYRNRMRFAVEVVRAVRERVGNDFI 210
>3aq2_A 6B protein; miRNA machineries, toxin, ADP-ribosylation fold; 1.65A
{Agrobacterium vitis} PDB: 3aq3_A
Length = 207
Score = 29.1 bits (64), Expect = 3.4
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 326 EEDEDEEESEAEEGEKENKETIIDN 350
EE ED E E EE E+E +E + +
Sbjct: 167 EEGEDNEGIENEEEEEETREFQLSD 191
Score = 28.7 bits (63), Expect = 4.6
Identities = 11/51 (21%), Positives = 24/51 (47%)
Query: 290 NVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGE 340
+F ++ + Y R+ E+ +D +G + E+E+EE E + +
Sbjct: 141 QLFIRIRTDVIRGQGYGWYARQGNYVEEGEDNEGIENEEEEEETREFQLSD 191
>3gjx_A Exportin-1; transport, cytoplasm, nucleus, RNA-binding,
acetylation, GTP-binding, HOST-virus interaction,
nucleotide-binding, phosphoprotein; HET: GTP; 2.50A {Mus
musculus} PDB: 3nby_A* 3nbz_A* 3nc0_A* 3nc1_A* 3gb8_A
Length = 1073
Score = 29.1 bits (64), Expect = 4.9
Identities = 50/388 (12%), Positives = 124/388 (31%), Gaps = 39/388 (10%)
Query: 75 IIARKLFQENIIRGRGLLT--RTILQAQAASPTFTNVYAALVDIINSKFPSIGELLLNRC 132
+I + L +E G +T + + F+ ++ ++ S L++
Sbjct: 171 VILKLLSEEVFDFSSGQITQVKAKHLKDSMCNEFSQIFQLCQFVME---NSQNAPLVHAT 227
Query: 133 IQQFKRSFKRNDKALCINS--VTFIAHLVNQQVAHEIIVLEILTLLVETPTNDSDFSLEP 190
++ R + ++ + + + L+ LT + + + E
Sbjct: 228 LETLLRFLNWIPLGYIFETKLISTLIYKFLNVPMFRNVSLKCLTEIAGVSVSQYEEQFET 287
Query: 191 YSKHKLHHLRSLMCMPLWWISSIQSFQALESFFSTDVY-----------------NSSKG 233
+ L+ ++ + + + + E F ++ + +
Sbjct: 288 LFTLTMMQLKQMLPLNTNIRLAYSNGKDDEQNFIQNLSLFLCTFLKEHGQLLEKRLNLRE 347
Query: 234 KLEKRVQYMIEVLAQVRKDNFKDFPDVIEDL--DLVPEEDKFTHLMTLDGVKDTQDILNV 291
L + + YM+ V + FK + L +L E T L
Sbjct: 348 ALMEALHYMLLVSEVEETEIFKICLEYWNHLAAELYRESPFSTSASPL------LSGSQH 401
Query: 292 FQYDPEYLMNEEKYTTLRREIL--GDEDEDDEDGDDEEDE----DEEESEAEEGEKENKE 345
F P + + +R ++ + E+ ++++ E +++++ K +E
Sbjct: 402 FDIPPRRQLYLTVLSKVRLLMVSRMAKPEEVLVVENDQGEVVREFMKDTDSINLYKNMRE 461
Query: 346 TIIDNTETNLVALRRTIYLTIHSSLDFEECA-HKLLRMQLKPGQESELCHIVHIDTSLWG 404
T++ T + V + + + ++ E + L + G S H L
Sbjct: 462 TLVYLTHLDYVDTEIIMTKKLQNQVNGTEWSWKNLNTLCWAIGSISGAMHEEDEKRFLVT 521
Query: 405 LFGDQLRTYEKFFGLLAQRFCQINKMYV 432
+ D L E+ G + N MY+
Sbjct: 522 VIKDLLGLCEQKRGKDNKAIIASNIMYI 549
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 28.6 bits (65), Expect = 5.6
Identities = 10/62 (16%), Positives = 16/62 (25%), Gaps = 10/62 (16%)
Query: 492 VAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMG--LSKLNQKIK 549
+ +++ FIKI++ ELS G K
Sbjct: 45 LVFSLTNKIKERLKNEKPP--------TYIERREWFIKIVYDELSNLFGGDKEPKVIPDK 96
Query: 550 DP 551
P
Sbjct: 97 IP 98
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 28.5 bits (63), Expect = 5.9
Identities = 14/73 (19%), Positives = 25/73 (34%), Gaps = 8/73 (10%)
Query: 307 TLRREILGDEDEDDEDGDDEEDEDEEES------EAEEGEKENKETIIDNTETNLVALRR 360
R+ I+ E+ D+ +++ G K II + TNL RR
Sbjct: 36 DYRQSIMAHEERDEYKYTKKKEGIVTGMQFDTAKSILYGGDSVKGVIISD--TNLNPERR 93
Query: 361 TIYLTIHSSLDFE 373
+ T ++
Sbjct: 94 LAWETFAKEYGWK 106
>1vq8_G Acidic ribosomal protein P0 homolog; ribosome 50S, protein-protein
complex, RNA-RNA complex, PROT complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} SCOP: j.84.1.1 PDB:
1k73_I* 1k8a_I* 1k9m_I* 1kc8_I* 1kd1_I* 1kqs_G* 1m1k_I*
1m90_I* 1n8r_I* 1nji_I* 1q7y_I* 1q81_I* 1q82_I* 1q86_I*
1qvf_G 1qvg_G 1s72_G* 1vq4_G* 1vq5_G* 1vq6_G* ...
Length = 348
Score = 28.7 bits (63), Expect = 6.1
Identities = 5/27 (18%), Positives = 15/27 (55%)
Query: 314 GDEDEDDEDGDDEEDEDEEESEAEEGE 340
D+ ++D D ++ +E + + ++ E
Sbjct: 312 DDDTASEDDADADDAAEEADDDDDDDE 338
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo
domain, mRNA turnover, RRN processing, RNA binding, DNA
binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A
Length = 1155
Score = 28.8 bits (63), Expect = 6.4
Identities = 33/230 (14%), Positives = 70/230 (30%), Gaps = 14/230 (6%)
Query: 128 LLNRCIQQFKRSFKRNDKALCINSVTFIAHLVNQQVAHEIIVLEIL--TLLVETPTNDSD 185
LL + KRS + ++ L + + + E +D
Sbjct: 223 LLREEVTFGKRSSSVKTLETQNFFLLHLSILREYLALEFEEITDSVQFEYDFERVLDDFI 282
Query: 186 FSLEPYSKHKLHHLRSLMCMPLWWISSIQSFQALESFFSTDVYNSSKGKLE-KRVQYMIE 244
F L L +L L + +Q+F+ E+ D Y + +GK+ R ++
Sbjct: 283 FVLFTIGNDFLPNLPDLHLKKGAFPVLLQTFK--EALQHMDGYINEQGKINLARFSIWLK 340
Query: 245 VLAQVRKDNFKD-------FPDVIEDLDLVPEED--KFTHLMTLDGVKDTQDILNVFQYD 295
L+ NF+ F +E++ L E + + + K + +
Sbjct: 341 YLSDFEYLNFEKKDIDVEWFNQQLENISLEGERKRTRMGKKLLMKQQKKLIGAVKPWLLK 400
Query: 296 PEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDEDEEESEAEEGEKENKE 345
+ EI ED++ + + ++ +
Sbjct: 401 TVQRKVTSELQDADFEIFPLEDKELVRANLDFLKEFAFDLGLILAHSKSK 450
>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding
protein, gene regulation; NMR {Homo sapiens} SCOP:
b.40.4.5
Length = 143
Score = 27.3 bits (60), Expect = 8.8
Identities = 11/73 (15%), Positives = 29/73 (39%), Gaps = 2/73 (2%)
Query: 270 EDKFTHLMTLDGVKDTQDILNVFQYDPEYLMNEEKYTTLRREILGDEDEDDEDGDDEEDE 329
+ D + D++ +Y+ + + + Y L +E + GDD+E +
Sbjct: 72 TSDIILVGLRDYQDNKADVI--LKYNADEARSLKAYGELPEHAKINETDTFGPGDDDEIQ 129
Query: 330 DEEESEAEEGEKE 342
++ + +E +
Sbjct: 130 FDDIGDDDEDIDD 142
>3sbt_B A1 cistron-splicing factor AAR2; rnaseh like domain, VHS like
domain, U5 snRNP assembly; 1.80A {Saccharomyces
cerevisiae} PDB: 3sbs_A
Length = 363
Score = 27.8 bits (61), Expect = 8.9
Identities = 19/94 (20%), Positives = 33/94 (35%), Gaps = 13/94 (13%)
Query: 247 AQVRKDNFKDFPDVIED-LDLVPEEDKFTHLMTLDGVKDTQDILNVFQYDPEYLMNEEKY 305
A V K +++ + +PE+ + L + L E+
Sbjct: 254 ATVPKHMLDKLDEILYYQIKTLPEQ----YSDILLNERVWNICLYSSFQKNSLHNTEKIM 309
Query: 306 TTLRREILGDEDEDDE--------DGDDEEDEDE 331
E+LG ++EDD + DDE+DE
Sbjct: 310 ENKYPELLGKDNEDDALIYGISDEERDDEDDEHN 343
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
0.318 0.135 0.384
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,178,616
Number of extensions: 496455
Number of successful extensions: 2267
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2040
Number of HSP's successfully gapped: 197
Length of query: 551
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 453
Effective length of database: 3,965,535
Effective search space: 1796387355
Effective search space used: 1796387355
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.7 bits)