RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7163
(544 letters)
>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 = 60.6 bits (146), Expect = 9e-10
Identities = 51/379 (13%), Positives = 100/379 (26%), Gaps = 97/379 (25%)
Query: 186 FCLSKCVPV--QAFVRRVDFLFYQNLVEVLIPDAFLDAIVTLDFSTIESLWREFWRSQDN 243
+ + V AFV D Q++ + ++ +D I+ + R FW
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK-DAVSGTLRLFWTLLSK 74
Query: 244 NNG------DECEEEKY---LSKSKLFCLSKCVPVQAFVRRVDFLFYQNLVEVLIP-DV- 292
+E Y +S K + + ++ + D L+ N +V +V
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY--NDNQVFAKYNVS 132
Query: 293 --------------LRPIPG------------SLTSSI-------RNFAKGVESWLTNAM 319
LRP + + + WL
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI-FWLNLKN 191
Query: 320 QGCPQEMI----NIKVTAVGAFAQMLRRYTSLNHLAQAARAVLQN---STQINQMLTDLN 372
P+ ++ + + +++ + +A L+ S L L
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL- 250
Query: 373 RVDFHNVQEQASWV-------CQC-----DASLVQQLES---------DFKLTLQQQNSL 411
NVQ + C+ + L + +TL
Sbjct: 251 --L--NVQN--AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 412 EEWANWLKNVVNAVLKPFE---GKPN----FTKAARQFLLKWSFYSSMVIRDLTLRSAAS 464
+L + P E P ++ R L W + + LT +S
Sbjct: 305 SLLLKYLDCRPQDL--PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 465 FGSF--HLIRLLYDEY-MF 480
R ++D +F
Sbjct: 363 LNVLEPAEYRKMFDRLSVF 381
Score = 58.7 bits (141), Expect = 3e-09
Identities = 74/525 (14%), Positives = 149/525 (28%), Gaps = 153/525 (29%)
Query: 98 NFLGD-GSNAIPDFPEIDLS----EDCLPEDCTIEDV----DTFRSIYREHCEAFLDAIV 148
F+ + + D P+ LS + + + T S E + F++ ++
Sbjct: 28 AFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL 87
Query: 149 TLDFSTIESLWR-------------EFWRSQDNNNGDE------CEEEKYLS-KSKLFCL 188
+++ + S + R + N+ + YL + L L
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 189 S--------------KCVPV------QAFVRRVDF-LFYQNLVEVLIPDAFLDAIVTLDF 227
K ++DF +F+ NL P+ L+ + L
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL-L 206
Query: 228 STIESLWREFWRSQDN---NNGDECEEEKYLSKSKLF--CL--------SKCVPVQAFVR 274
I+ W N E + L KSK + CL +K AF
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW--NAF-- 262
Query: 275 RVDF----LF---YQNLVEVLIPDVLRPIP-----GSLTS--SIRNFAKGVESWLTNAMQ 320
+ L ++ + + L I +LT K +L Q
Sbjct: 263 --NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK----YLDCRPQ 316
Query: 321 GCPQEMINIKVTAVGAFAQMLR----RYTSLNHLAQAA-RAVLQNSTQINQMLTDLNRVD 375
P+E++ + A+ +R + + H+ ++++S +N + R
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS--LNVLEPAEYRKM 374
Query: 376 FHNVQEQASWVCQCDASLVQQLESDFKLTLQQQNSLEEWANWLKNVVNAVLKPFEGKPNF 435
F S+ + + + W + +K+ V V+
Sbjct: 375 FD------------RLSV---FPPSAHIPTILLSLI--WFDVIKSDVMVVVNKLHKY--- 414
Query: 436 TKAARQFLLKWSFYSSMVIRDLTLRSAASF---GSFHLIRLLYDEYMFYLIEHQVALATG 492
+ K S++ I + L + H R + D Y
Sbjct: 415 -----SLVEKQPKESTISIPSIYLELKVKLENEYALH--RSIVDHYNIP----------- 456
Query: 493 ETPIAVIGSKESNPVESSQNPMDNGLYAHGQNNILVHEELHISHA 537
K + + +D Y+H + H H+ +
Sbjct: 457 ---------KTFDSDDLIPPYLDQYFYSH-----IGH---HLKNI 484
>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 = 52.0 bits (124), Expect = 4e-07
Identities = 72/482 (14%), Positives = 131/482 (27%), Gaps = 157/482 (32%)
Query: 134 SIYREHCEAFLDAIVTLDFSTIESLWREFWRSQDNNNGDECEEEKYLSKSKL------FC 187
S+ EH L + T F L +F + +++ + ++L +
Sbjct: 15 SL--EH--VLL--VPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 188 LSKCVP-------------VQAFVRRVDFLFYQNLVEVLIPDAFLDAIVTLDFSTIESLW 234
S P + F +L + + L A L + L
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFEN--CYLEGND-IHALA--AKLLQENDTTLVKTKELI 123
Query: 235 REFWRSQDNNNGDECEEEKYLSKSKLFCLSKCVPVQAFVRRVDFLF-------------- 280
+ + ++ S S LF Q +F
Sbjct: 124 KNYITARIMAK----RPFDKKSNSALFRAVGEGNAQLVA-----IFGGQGNTDDYFEELR 174
Query: 281 -----YQNLVEVLIP---DVLRPIPGSLTSSIRNFAKG--VESWLTNAMQGCPQEMINIK 330
Y LV LI + L + + + + F +G + WL N P
Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP-SNTP------- 226
Query: 331 VTAVGAFAQMLRRYTSLNHLAQAARAV-LQNSTQINQMLTDLNRVDFH--NVQEQASWVC 387
++L + L Q+ + + F ++
Sbjct: 227 ---------------DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 388 QCDASLVQQL---ESDFKLTLQQQNSLEEWANWLKNVVNAVLKPF-------EGKPNFTK 437
LV + E+D W ++ +V A+ F E PN +
Sbjct: 272 GHSQGLVTAVAIAETD------------SWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 438 AARQFLLKWSFY------SSM-VIRDLTLRSAASFGSFHLIRLLYDEYMFYLIEHQ---V 487
+L+ S S M I +LT + + ++ +L + +
Sbjct: 320 PPS--ILEDSLENNEGVPSPMLSISNLTQE--------QVQDYV-NKTNSHLPAGKQVEI 368
Query: 488 ALATGETPIAVIGSKESNPVESSQNPMDNGLYAHGQNNILVHEELHISHAPK-----RIK 542
+L G + V G P +S LY ++ L + AP RI
Sbjct: 369 SLVNGAKNLVVSG-----PPQS--------LYG-------LNLTLRKAKAPSGLDQSRIP 408
Query: 543 LS 544
S
Sbjct: 409 FS 410
Score = 34.3 bits (78), Expect = 0.12
Identities = 62/437 (14%), Positives = 114/437 (26%), Gaps = 169/437 (38%)
Query: 35 YYGIRVKPDSPLNNIPLSDENGSPRGKKYKLVKTDSNSNQYGSEGHTTAGQTNSNPSPQS 94
Y R+ P + S + +LV +G GQ
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLV------AIFG-------GQ--------- 163
Query: 95 GNHNFLGDGSNAIPDFPEIDLSEDCLPEDCTIEDVDTFRSIYREHCEAFLDAIVTLDFST 154
GN ++D E R +Y+ + + ++ T
Sbjct: 164 GN-------------------TDDYFEE---------LRDLYQTY-HVLVGDLIKFSAET 194
Query: 155 IESLWREFWRSQDNNNGDECEEEKYLSKSKLFCLSKCVPVQAFVRRVDFLFYQNLVEVLI 214
+ L R + EK ++ + + ++
Sbjct: 195 LSELIR-----------TTLDAEKVFTQG--------LNILEWLENPS----------NT 225
Query: 215 PD-AFLDAI-VTLDFSTIESL--WREFWRSQDNNNGDECEEEKYLSKSKLFCLSKC---V 267
PD +L +I ++ + L + + G+ +S L + +
Sbjct: 226 PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE--------LRSYLKGATGHSQGL 277
Query: 268 PVQAFVRRVDFL--FYQNLVEVLIPDVL-----R-----PIPGSLTSSIRNFAKGVESWL 315
+ D F+ ++ + + VL R P SL SI +E L
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAI--TVLFFIGVRCYEAYPNT-SLPPSI------LEDSL 328
Query: 316 TNAMQGCPQEMINIKVTAVG-AFAQMLRRYTSLN-HLAQAARAV--LQNSTQINQMLT-- 369
N +G P M++I Q+ N HL + L N + N +++
Sbjct: 329 ENN-EGVPSPMLSIS----NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK-NLVVSGP 382
Query: 370 --DLNRVDFHNVQEQASWVCQCDASLVQQLESDFKLTLQQQNSLEEWANWLKNVVNAVLK 427
L L L + Q+
Sbjct: 383 PQSL-------------------YGLNLTLRKAKAPSGLDQSR----------------I 407
Query: 428 PFEG-KPNFTKAARQFL 443
PF K F+ +FL
Sbjct: 408 PFSERKLKFSN---RFL 421
>1dp7_P MHC class II transcription factor HRFX1; winged helix, protein-
DNA conovel mode of DNA recognition, transcription/DNA
complex; HET: DNA BRU; 1.50A {Synthetic} SCOP: a.4.5.20
Length = 76
Score = 32.9 bits (75), Expect = 0.029
Identities = 11/13 (84%), Positives = 13/13 (100%)
Query: 1 GNSKYHYYGIRVK 13
GNSKYHYYG+R+K
Sbjct: 63 GNSKYHYYGLRIK 75
Score = 32.9 bits (75), Expect = 0.029
Identities = 11/13 (84%), Positives = 13/13 (100%)
Query: 29 GNSKYHYYGIRVK 41
GNSKYHYYG+R+K
Sbjct: 63 GNSKYHYYGLRIK 75
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding,
protein biosynthesis I aminoacyl-tRNA synthetase,
ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A
4ari_A* 4as1_A*
Length = 880
Score = 30.2 bits (69), Expect = 2.4
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 5/39 (12%)
Query: 151 DFSTIESLWREFWRSQDNNNGDECEEEKYLSKSKLFCLS 189
IES + W D E E++ SK K +CLS
Sbjct: 26 RPEEIESKVQLHW---DEKRTFEVTEDE--SKEKYYCLS 59
Score = 30.2 bits (69), Expect = 2.4
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 5/39 (12%)
Query: 226 DFSTIESLWREFWRSQDNNNGDECEEEKYLSKSKLFCLS 264
IES + W D E E++ SK K +CLS
Sbjct: 26 RPEEIESKVQLHW---DEKRTFEVTEDE--SKEKYYCLS 59
>3pe0_A Plectin; cytoskeleton, plakin, spectrin repeat, SH3, structural
prote intermediate filament, crosslinking; 2.95A {Homo
sapiens}
Length = 283
Score = 28.1 bits (62), Expect = 8.3
Identities = 22/149 (14%), Positives = 45/149 (30%), Gaps = 27/149 (18%)
Query: 312 ESWLTNAMQGCPQEMINIKVTAVGAF--------AQMLRRYTSLNHLAQAARAVLQN--- 360
WL + + + T + A ++ + + L A +L+
Sbjct: 21 LMWLNEKEEEEVGFDWSDRNTNMTAKKESYSALMRELELKEKKIKELQNAGDRLLREDHP 80
Query: 361 -STQINQMLTDLNRVDFHNVQEQASWVCQCDASLVQQLESDFKLTLQQQN---SLEEWAN 416
+ L Q Q SW+ Q L +E+ K + E
Sbjct: 81 ARPTVESFQAAL--------QTQWSWMLQ----LCCCIEAHLKENAAYFQFFSDVREAEG 128
Query: 417 WLKNVVNAVLKPFEGKPNFTKAARQFLLK 445
L+ + A+ + + + T + LL+
Sbjct: 129 QLQKLQEALRRKYSCDRSATVTRLEDLLQ 157
>4an8_A CSE1; immune system, crispr, cascade, CASA; 2.30A {Thermus
thermophilus} PDB: 4f3e_A
Length = 506
Score = 28.1 bits (62), Expect = 9.3
Identities = 14/107 (13%), Positives = 32/107 (29%), Gaps = 11/107 (10%)
Query: 324 QEMINIKVTAVGAFAQMLRRYTSLNHLAQAARAVLQNSTQINQMLTDLNRVDFHNVQEQA 383
+E + + Q L+ +A+A + L +L ++ E+
Sbjct: 375 EENLEKALKMAEELGQGLKHL--AQEVAKAVVGERDRGHGRSPYLEELTKLANSLPLERL 432
Query: 384 SWVCQCDASLVQQLESDFKLTLQQQNSLEEWANWLKNVVNAVLKPFE 430
W L+ F + W + + A L+ ++
Sbjct: 433 YW---------HALDGAFPRFFARVEEEASLDLWREALRGAALEAWK 470
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 0.134 0.403
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,363,613
Number of extensions: 486650
Number of successful extensions: 1035
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1022
Number of HSP's successfully gapped: 17
Length of query: 544
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 446
Effective length of database: 3,965,535
Effective search space: 1768628610
Effective search space used: 1768628610
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 (26.8 bits)