RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 009707
(528 letters)
>1sgv_A TRNA pseudouridine synthase B; hinged motion, tRNA modification,
structural genomics, PSI, structure initiative; 1.90A
{Mycobacterium tuberculosis} SCOP: b.122.1.1 d.265.1.2
Length = 316
Score = 314 bits (808), Expect = e-104
Identities = 95/225 (42%), Positives = 134/225 (59%), Gaps = 6/225 (2%)
Query: 300 LPPTWDGPFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA 359
+ T G +V+++KP G TS V G+ RR+ ++VGHAGTLDPMATG+L++ + +A
Sbjct: 1 MSATGPG----IVVIDKPAGMTSHDVVGRCRRIFATRRVGHAGTLDPMATGVLVIGIERA 56
Query: 360 TKLVDRYQGMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQ 419
TK++ K Y+ RLG+ TST DA+ V+Q P +H+ E I A RGEI Q
Sbjct: 57 TKILGLLTAAPKSYAATIRLGQTTSTEDAEGQVLQSVPAKHLTIEAIDAAMERLRGEIRQ 116
Query: 420 VPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDI--ERSLEDRQNLIFRVTCSKG 477
VP SAIKVGG + Y AR+G S++L R I I +F++ R + ++ + CS G
Sbjct: 117 VPSSVSAIKVGGRRAYRLARQGRSVQLEARPIRIDRFELLAARRRDQLIDIDVEIDCSSG 176
Query: 478 TYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522
TYIR+L D G ALG H+TALRR +G++ D A +L E
Sbjct: 177 TYIRALARDLGDALGVGGHVTALRRTRVGRFELDQARSLDDLAER 221
>1r3e_A TRNA pseudouridine synthase B; RNA modification, pseudouridylation,
lyase-RNA complex; HET: FHU; 2.10A {Thermotoga maritima}
SCOP: b.122.1.1 d.265.1.2 PDB: 1ze2_A* 2ab4_A* 1ze1_A
Length = 309
Score = 301 bits (773), Expect = 3e-99
Identities = 83/211 (39%), Positives = 125/211 (59%), Gaps = 3/211 (1%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
++ KPKG TS V ++R+ +K +KVGH GTLDP A G+LI+ V + T++++ Y+ + K
Sbjct: 6 LVAYKPKGPTSHDVVDEVRKKLKTRKVGHGGTLDPFACGVLIIGVNQGTRILEFYKDLKK 65
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y RLG T T+D V++ ++ +E+IR+A SF GE QVPP +SA K G
Sbjct: 66 VYWVKMRLGLITETFDITGEVVEEREC-NVTEEEIREAIFSFVGEYDQVPPAYSAKKYKG 124
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
E++Y AR G+ I L P+R+ IF+ + +++ FRV S GTYIRSLC D G L
Sbjct: 125 ERLYKLAREGKIINLPPKRVKIFKIWDVN--IEGRDVSFRVEVSPGTYIRSLCMDIGYKL 182
Query: 492 GSCAHLTALRRDSIGQYSADDAWEFKELEEA 522
G A L R+S+G ++ +++ E
Sbjct: 183 GCGATAVELVRESVGPHTIEESLNVFEAAPE 213
>1k8w_A TRNA pseudouridine synthase B; protein-RNA complex, T stem-loop,
lyase/RNA complex; HET: FHU; 1.85A {Escherichia coli}
SCOP: b.122.1.1 d.265.1.2 PDB: 1zl3_A* 1r3f_A
Length = 327
Score = 296 bits (760), Expect = 4e-97
Identities = 75/215 (34%), Positives = 122/215 (56%), Gaps = 3/215 (1%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
+L++KP+G +S K++R+ + GH G LDP+ATG+L +C+G+ATK K
Sbjct: 28 LLLDKPQGMSSNDALQKVKRIYNANRAGHTGALDPLATGMLPICLGEATKFSQYLLDSDK 87
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y + RLG+ T T DAD +++ P E + A +FRG+I Q+P M+SA+K G
Sbjct: 88 RYRVIARLGQRTDTSDADGQIVEERPVT-FSAEQLAAALDTFRGDIEQIPSMYSALKYQG 146
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
+K+Y+ AR+G + R I++++ R + L + CSKGTYIR++ D G+ L
Sbjct: 147 KKLYEYARQGIEVPREARPITVYELLFIRHEGNE--LELEIHCSKGTYIRTIIDDLGEKL 204
Query: 492 GSCAHLTALRRDSIGQYSADDAWEFKELEEAITKN 526
G AH+ LRR ++ +Y + + L E + +
Sbjct: 205 GCGAHVIYLRRLAVSKYPVERMVTLEHLRELVEQA 239
>2apo_A Probable tRNA pseudouridine synthase B; protein-protein complex,
box H/ACA, snoRNP, pseudouridine synthase, RNA
modification; 1.95A {Methanocaldococcus jannaschii}
SCOP: b.122.1.1 d.265.1.2
Length = 357
Score = 229 bits (586), Expect = 9e-71
Identities = 67/212 (31%), Positives = 102/212 (48%), Gaps = 37/212 (17%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
V+V+KP+G TS V +++++ + K GH GTLDP TG+L V + +ATK + + K
Sbjct: 69 VVVDKPRGPTSHEVSTWVKKILNLDKAGHGGTLDPKVTGVLPVALERATKTIPMWHIPPK 128
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y + L S EDI + F G I+Q PP+ +A+K
Sbjct: 129 EYVCLMHLHRDASE------------------EDILRVFKEFTGRIYQRPPLKAAVKR-- 168
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
R I + ++ +D ++++FRV C GTYIR LC D G+AL
Sbjct: 169 ---------------RLRIRKIHELELLD--KDGKDVLFRVKCQSGTYIRKLCEDIGEAL 211
Query: 492 GSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523
G+ AH+ LRR G + DA ++L +A
Sbjct: 212 GTSAHMQELRRTKSGCFEEKDAVYLQDLLDAY 243
>2aus_C Pseudouridine synthase; isomerase, structural protein,
isomerase-structural protein; 2.10A {Pyrococcus abyssi}
PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A*
2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A
Length = 334
Score = 222 bits (568), Expect = 2e-68
Identities = 61/213 (28%), Positives = 93/213 (43%), Gaps = 38/213 (17%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
+ ++KP G TS V ++R++ ++K GH GTLDP +G+L V + +AT++V K
Sbjct: 49 INLDKPPGPTSHEVVAWIKRILNLEKAGHGGTLDPKVSGVLPVALERATRVVQALLPAGK 108
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y + L ++ IR F GEI Q PP+ SA+K
Sbjct: 109 EYVALMHLHGDVP------------------EDKIRAVMKEFEGEIIQRPPLRSAVKR-- 148
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
R ++ +I D ++++FRV GTYIRSL G AL
Sbjct: 149 ---------------RLRTRKVYYIEILEI--DGRDVLFRVGVEAGTYIRSLIHHIGLAL 191
Query: 492 GSCAHLTALRRDSIGQYSADDAWE-FKELEEAI 523
G AH+ LRR G + D+ +L +
Sbjct: 192 GVGAHMAELRRTRSGPFKEDETLVTLHDLVDYY 224
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase,
pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces
cerevisiae} PDB: 3uai_A
Length = 400
Score = 207 bits (528), Expect = 7e-62
Identities = 60/213 (28%), Positives = 101/213 (47%), Gaps = 35/213 (16%)
Query: 311 MVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMI 370
++ ++KP +S V ++R+++ +K GH+GTLDP TG LIVC+ +AT+LV QG
Sbjct: 61 VINLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKVTGCLIVCIDRATRLVKSQQGAG 120
Query: 371 KGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVG 430
K Y + RL +A ++D+ ++ + G ++Q PP+ SA+K
Sbjct: 121 KEYVCIVRLHDALKD-----------------EKDLGRSLENLTGALFQRPPLISAVKR- 162
Query: 431 GEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKA 490
R +I++ ++ R +F +C GTY+R+LC G
Sbjct: 163 ----------------QLRVRTIYESNLIEFDNKRNLGVFWASCEAGTYMRTLCVHLGML 206
Query: 491 LGSCAHLTALRRDSIGQYSADDAWE-FKELEEA 522
LG H+ LRR G S +D ++ +A
Sbjct: 207 LGVGGHMQELRRVRSGALSENDNMVTLHDVMDA 239
>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 = 67.2 bits (163), Expect = 7e-12
Identities = 75/563 (13%), Positives = 162/563 (28%), Gaps = 169/563 (30%)
Query: 23 PPLKDNFIK----KNVYLLSTKAFSSSITSTPYPLQYDMIINNPTQPQQSQTRR------ 72
+D F+ K+V + S + D II + S T R
Sbjct: 23 SVFEDAFVDNFDCKDVQDMPKSILSKE--------EIDHIIMSKDA--VSGTLRLFWTLL 72
Query: 73 -RPARVNSTNSDENQNPDGELGFDSWVDKKLEKEAKTRQPGSDNAEMTKSMRKYYNKRRQ 131
+ + +E + + ++ ++ E RQP + Y ++R
Sbjct: 73 SKQEEMVQKFVEEVLRINYK-----FLMSPIKTE--QRQPSMM--------TRMYIEQRD 117
Query: 132 RMYGTDS---------EDEYGKNDDGFVELKPE----------------VVEFNRLHKRE 166
R+Y + Y K +EL+P ++ +K +
Sbjct: 118 RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 167 EELY---FYDTFAYPWEKDKHYKMVYQLEKKYFPDQCLDKAFLDPSADQNVKKMRKKAGG 223
++ F+ + +M+ +L +DP+
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKL--------LYQ---IDPNWTSRSDHS------ 220
Query: 224 KSEEKKYNKEDDKRLVFFDDQEKKSEKDS--ILGEDVNVKGEVSEKKVEEF-FKC--L-- 276
+ + + + + + K ++ +L +V + K F C L
Sbjct: 221 SNIKLRIHSIQAELRRLL---KSKPYENCLLVL-LNVQ-----NAKAWNAFNLSCKILLT 271
Query: 277 ---KKVPNKENEVGSGEPYIVSRSTELPPTWDGPFGTMVLVNKPKGWTSFTVCGKLRRLV 333
K+V + + + + S L P L+ K + L R V
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPD-----EVKSLLLK---YLD-CRPQDLPREV 322
Query: 334 KVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDADSPVI 393
T +P ++ A + D +TWD
Sbjct: 323 L--------TTNPRRLSII------AESIRDG-----------------LATWD------ 345
Query: 394 QREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDK-ARRGESIELSPRRIS 452
W+H+ + + S + + P + + KM+D+ + S + +S
Sbjct: 346 ---NWKHVNCDKLTTIIESS---LNVLEP--AEYR----KMFDRLSVFPPSAHIPTILLS 393
Query: 453 IF-----QFDIERSLED--RQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSI 505
+ + D+ + + +L+ + I S+ + + AL R +
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL---KVKLENEYALHRSIV 450
Query: 506 GQYSADDAWEFKELEEAITKNYF 528
Y+ ++ +L YF
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYF 473
Score = 51.8 bits (123), Expect = 5e-07
Identities = 48/327 (14%), Positives = 87/327 (26%), Gaps = 97/327 (29%)
Query: 3 LLLLRPKLITSSRTLSLLLPPPLKDN---FIKKNVYLLSTKAFSSSITSTP------YPL 53
LL R K +T + + L + V L K P P
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 54 QYDMI----INNPTQPQQSQTRRRPARVNST--NSDENQNPDG------ELG-F--DSWV 98
+ +I + + ++ + +S P L F + +
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCD-KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 99 -DKKLE---KEAKTRQPGSDNAEM-TKSM-RKYYNKRRQRMYGTDSEDEYGKNDDGFVEL 152
L + ++ S+ K + + ++EL
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP------------SIYLEL 435
Query: 153 KPEVVEFNRLHKR-------------------EEELYFYDTFAYPWEKDKHYKMVYQLEK 193
K ++ LH+ + YFY + H K + E+
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH------HLKNIEHPER 489
Query: 194 -KYFPDQCLDKAFLDPSADQNVKKMRK-----KAGGKSEE-----KKY------NKEDDK 236
F LD FL+ +K+R A G K Y N +
Sbjct: 490 MTLFRMVFLDFRFLE-------QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542
Query: 237 RLVFFDDQEK---KSEKDSILGEDVNV 260
RLV + K E++ I + ++
Sbjct: 543 RLV--NAILDFLPKIEENLICSKYTDL 567
>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 = 50.4 bits (120), Expect = 1e-06
Identities = 111/655 (16%), Positives = 186/655 (28%), Gaps = 247/655 (37%)
Query: 1 MSLLLLRPKLITS-SRTLSLLLPPP-------LKDNFIKKNVYLLSTKAFSSSI-TSTPY 51
M RP ++ S LL+P L++ F K T+ F++ +TP
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKI--LPEPTEGFAADDEPTTPA 58
Query: 52 PL--QYDMIINNPTQPQQSQTRRRPARVNSTNSDENQNPDGELGFD--SWVDKKLEKEAK 107
L ++ +++ +P + + + EN +G D + KL +E
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNL-CLTEFENCYLEGN---DIHALA-AKLLQEND 113
Query: 108 TRQPGSDNAEMTKSMRKYYNKR----RQRMYGTDS------EDE----Y------GKNDD 147
T + ++ Y R R ++S + G DD
Sbjct: 114 TTLVKTKEL-----IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 148 GFVEL-------KPEVVEF-NRLHKREEELYFYDTFAYPWEKDKHYKMVYQ----LEKKY 195
F EL V + + EL + +K + LE
Sbjct: 169 YFEELRDLYQTYHVLVGDLIKFSAETLSELI-----RTTLDAEKVFTQGLNILEWLEN-- 221
Query: 196 FPDQCLDKAFLD------P---------------SADQNVKKMRKK-------------- 220
P DK +L P ++R
Sbjct: 222 -PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA 280
Query: 221 ---AGGKSEEKKYNKEDDK--RLVFF-----------DDQEKKSEKDSI-LGEDV----- 258
A S E + K ++FF +DS+ E V
Sbjct: 281 VAIAETDSWES-FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 259 NVKGEVSEKKVEEFFKCLKKVPNKENEVGSGEPYI-VSRSTELPPTWDGPFGTMVLVNKP 317
++ +++++V+++ + K N + +S LVN
Sbjct: 340 SISN-LTQEQVQDY---VNKT----NSHLPAGKQVEIS-----------------LVNGA 374
Query: 318 KGWTSFTVCG---KLRRLV-KVKKVGHAGTLD----PMATGLLIVCVGKATKLVDRYQGM 369
K + V G L L ++K LD P + + K +R+
Sbjct: 375 K---NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS--------ERKLKFSNRF--- 420
Query: 370 IKGYSGVFRLGEATSTWDADSPVIQR------EPWEHIKDEDIRKAAASFRGEIWQVPPM 423
L PV P + ++D+ K SF + Q+P
Sbjct: 421 ---------L-----------PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP-- 458
Query: 424 FSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTC-------SK 476
V YD G + R +S I + D I R+ K
Sbjct: 459 -----V-----YD-TFDGSDL----RVLS---GSISERIVD---CIIRLPVKWETTTQFK 497
Query: 477 GTYIRSLCADFG----KALGSCAHLTALRRDSIG---------QYSADDAWEFKE 518
T+I L DFG LG LT +D G + DD + FK+
Sbjct: 498 ATHI--L--DFGPGGASGLGV---LTHRNKDGTGVRVIVAGTLDINPDDDYGFKQ 545
Score = 45.0 bits (106), Expect = 6e-05
Identities = 37/167 (22%), Positives = 56/167 (33%), Gaps = 47/167 (28%)
Query: 366 YQGMIKG---Y--SGVFRLGEATSTWD-ADSPVIQREPWE--HIKDEDIRKAAASFRGEI 417
QGM G Y S + W+ AD+ + I + F GE
Sbjct: 1628 EQGM--GMDLYKTSKAAQ-----DVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 418 WQ-VPPMFSAIKVGGEKMYDKARRGESI--ELSPRRIS-IFQFDIERSLEDRQN------ 467
+ + +SA+ E + D + E I E++ S F+ + L Q
Sbjct: 1681 GKRIRENYSAMIF--ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL-LSATQFTQPALT 1737
Query: 468 ----LIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSA 510
F SKG + A F A G H S+G+Y+A
Sbjct: 1738 LMEKAAFEDLKSKG--LIPADATF--A-G---H-------SLGEYAA 1769
Score = 28.9 bits (64), Expect = 5.8
Identities = 21/109 (19%), Positives = 33/109 (30%), Gaps = 40/109 (36%)
Query: 35 YLLSTKAFSSSITSTPYPLQYDMIINNPTQ------PQQSQTRRRPARVNSTNSDENQNP 88
+ T FS I D++INNP ++ + R N +
Sbjct: 1652 HFKDTYGFS--IL--------DIVINNPVNLTIHFGGEKGKR----IRENYSAMIFETIV 1697
Query: 89 DGELG----FDSWVDKKL-------EKEA--KTR--QPGSDNAEMTKSM 122
DG+L F +++ EK T+ QP A
Sbjct: 1698 DGKLKTEKIFKE-INEHSTSYTFRSEKGLLSATQFTQP----ALTLMEK 1741
>2v9k_A Uncharacterized protein FLJ32312; pseudouridine synthase, PUS10,
RNA modification, thump domai; HET: EPE; 2.0A {Homo
sapiens}
Length = 530
Score = 47.2 bits (111), Expect = 1e-05
Identities = 24/179 (13%), Positives = 51/179 (28%), Gaps = 43/179 (24%)
Query: 330 RRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389
+ + ++++ + + L +V + + + K YS + +A
Sbjct: 372 QEIKELQQKINNSSNKIQVRDLQLVTREAIGHMKEGEEEKTKTYSALIWTNKA------- 424
Query: 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPR 449
I+ +DI +I Q P+ + R
Sbjct: 425 -----------IQKKDIEFLNDIKDLKIDQKTPLRVLHRRPLAV---------------R 458
Query: 450 RISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLC-ADFGK-------ALGSCAHLTAL 500
I + + D + + GTYI+ DFG+ + A + L
Sbjct: 459 ARVIHFMETQY--VDEHHFRLHLKTQAGTYIKEFVHGDFGRTKPNIGSLMNVTADILEL 515
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.40
Identities = 15/87 (17%), Positives = 34/87 (39%), Gaps = 23/87 (26%)
Query: 224 KSEE----KKYNKEDDKRLVFFDDQEKKSEKDSILGEDVNVKGEVSEKKVEEFFKCLK-- 277
++E +K+ +E KRL D K E++ E ++K +EE+ +
Sbjct: 80 LTQEPESIRKWREEQRKRLQELDAASKVMEQEWR---------EKAKKDLEEWNQRQSEQ 130
Query: 278 ----KVPNKENEVGSGEPYIVSRSTEL 300
K+ N+ + + + ++
Sbjct: 131 VEKNKINNRIAD----KAFYQQPDADI 153
Score = 27.8 bits (61), Expect = 6.5
Identities = 12/92 (13%), Positives = 30/92 (32%), Gaps = 27/92 (29%)
Query: 154 PEVV-----EFN-RLHKREEELYFYDTFAYPWEKDKHYKMVYQLEKKYFPDQCLDKAFLD 207
PE + E RL + + K + + +K L++
Sbjct: 84 PESIRKWREEQRKRLQELDAA-----------SKVMEQEWREKAKKD------LEEWN-- 124
Query: 208 PSADQNVKKMRKKAGGKSEEKKYNKEDDKRLV 239
Q+ + + K + +K + ++ D ++
Sbjct: 125 --QRQSEQVEKNKINNRIADKAFYQQPDADII 154
>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 = 29.5 bits (65), Expect = 1.4
Identities = 7/24 (29%), Positives = 8/24 (33%), Gaps = 5/24 (20%)
Query: 100 KKLEKEAKTRQPGSD-----NAEM 118
KKL+ K S A M
Sbjct: 23 KKLQASLKLYADDSAPALAIKATM 46
Score = 28.0 bits (61), Expect = 5.7
Identities = 6/22 (27%), Positives = 10/22 (45%), Gaps = 7/22 (31%)
Query: 180 EKDKHYKMVYQLE---KKYFPD 198
EK + + +L+ K Y D
Sbjct: 18 EK----QALKKLQASLKLYADD 35
>2ykt_A Brain-specific angiogenesis inhibitor 1-associate protein 2;
signaling protein, NPY motif, binding pocket; 2.11A
{Homo sapiens} PDB: 1y2o_A 1wdz_A
Length = 253
Score = 29.1 bits (64), Expect = 3.7
Identities = 24/151 (15%), Positives = 54/151 (35%), Gaps = 11/151 (7%)
Query: 141 EYGKNDDGFVELKPEVVEFNRLHKREEELY------FYDTFAYPWEK--DKHYKMVYQLE 192
E G EL + + +H++ + F++ E+ + + +
Sbjct: 64 ELASESQGSKELGDVLFQMAEVHRQIQNQLEEMLKSFHNELLTQLEQKVELDSRYLSAAL 123
Query: 193 KKYFPDQCLDKAFLDPSADQNVKKMRKKAGGKSEEKKYNKEDDKRLVFFDDQEKKSEKDS 252
KKY +Q LD +KK+RKK+ G +KY+ ++ + + K+ E ++
Sbjct: 124 KKYQTEQRSKGDALD-KCQAELKKLRKKSQGSKNPQKYSDKELQYID--AISNKQGELEN 180
Query: 253 ILGEDVNVKGEVSEKKVEEFFKCLKKVPNKE 283
+ + ++ + V
Sbjct: 181 YVSDGYKTALTEERRRFCFLVEKQCAVAKNS 211
>3cpe_A Terminase, DNA packaging protein GP17; large terminase, alternative
initiation, ATP-binding, DNA- binding, hydrolase,
nuclease; HET: DNA; 2.80A {Bacteriophage T4} PDB:
3ezk_A*
Length = 592
Score = 28.8 bits (63), Expect = 5.5
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 228 KKYNKEDDKRLVFFDDQEKKSEKDSILGED----VNVKGEVSEKKVEEFFKCLK 277
K DK +F ++K +++ +G N+K + + + VEE+ KC
Sbjct: 87 VKIPNNSDKPELFQTYKDKNNKRSRYMGLPNLKRANIKTQWTREMVEEWKKCRD 140
>2d1l_A Metastasis suppressor protein 1; IRSP53, actin binding, IMD,
protein binding; HET: MSE; 1.85A {Mus musculus}
Length = 253
Score = 27.5 bits (60), Expect = 9.8
Identities = 19/140 (13%), Positives = 40/140 (28%), Gaps = 7/140 (5%)
Query: 151 ELKPEVVEFNRLHKREEELY------FYDTFAYPWEKD-KHYKMVYQLEKKYFPDQCLDK 203
E+ + H+ E D P ++ + +K V K +
Sbjct: 77 EIGSALTRMCMRHRSIEAKLRQFSSALIDCLINPLQEQMEEWKKVANQLDKDHAKEYKKA 136
Query: 204 AFLDPSADQNVKKMRKKAGGKSEEKKYNKEDDKRLVFFDDQEKKSEKDSILGEDVNVKGE 263
+ K++KKA + + + + D +K + + V
Sbjct: 137 RQEIKKKSSDTLKLQKKAKKVDAQGRGDIQPQLDSALQDVNDKYLLLEETEKQAVRKALI 196
Query: 264 VSEKKVEEFFKCLKKVPNKE 283
+ F L+ V +E
Sbjct: 197 EERGRFCTFISMLRPVIEEE 216
>2v2g_A Peroxiredoxin 6; oxidoreductase, antioxidant enzymes; 1.60A
{Arenicola marina} PDB: 2v32_A 2v41_A
Length = 233
Score = 27.6 bits (62), Expect = 10.0
Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 7/52 (13%)
Query: 255 GEDVNVKGEVSEKKVEEFFKCLKKVPNKENEVGSGEPYIVSRSTELPPTWDG 306
G+ V VS ++ + F ++ V SG+ Y+ R T P + G
Sbjct: 180 GDRCMVVPGVSAEEAKTLFPNMEVK-----AVPSGKGYL--RYTPQPKSMGG 224
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
0.315 0.134 0.394
Gapped
Lambda K H
0.267 0.0556 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,106,272
Number of extensions: 491259
Number of successful extensions: 1010
Number of sequences better than 10.0: 1
Number of HSP's gapped: 984
Number of HSP's successfully gapped: 38
Length of query: 528
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 430
Effective length of database: 3,965,535
Effective search space: 1705180050
Effective search space used: 1705180050
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 (21.6 bits)
S2: 60 (27.3 bits)