RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10886
(320 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 = 47.2 bits (111), Expect = 5e-06
Identities = 62/391 (15%), Positives = 124/391 (31%), Gaps = 114/391 (29%)
Query: 6 SRTDFEWTYTEEPHASRRKEILKKYPEIKKLFGSDPKFK--YIVLSMVLVQFVSMYFLRN 63
+ D WT + ++ + I E+++L ++ +VL V F N
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCLLVLLNVQNAKAWNAF--N 263
Query: 64 VSWPVLLTVAYCFGGVINH-SLMLSIHEMAHNLAFGHSRPTANRILSLIAN-----LPI- 116
+S +LLT + V + S + H + + + +L + LP
Sbjct: 264 LSCKILLTTRF--KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 117 ---GIPFAI------------TFKYYHLEHHRYQGDEKLDTDIPTYMEARLFCTTFGKFI 161
P + T+ + ++ +KL T I + +
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNW-----KHVNCDKLTTIIESSLN------------ 364
Query: 162 WVCLQP-----FFYAFRPIFTYPKA---PTA-LELF-----NTVVQISFDVFICYFL--- 204
L+P F +F P + PT L L + V + + Y L
Sbjct: 365 --VLEPAEYRKMFDRL-SVF--PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 205 GGRMLSYMLLGSLMAMGLHP---VAGH--FVSEHYMFKKGYETYSYYGPL--NWITFNVG 257
+ + + + + + A H V +HY K +++ P + ++G
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIV-DHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 258 YH---NEHHD----FPAV--------------------PGSRLPMVKKIASEYY-----D 285
+H EH + F V GS L ++++ ++Y D
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL--KFYKPYICD 536
Query: 286 NLPQHHSWSAVLYDFVMDPD----IGPYARM 312
N P++ + DF+ + Y +
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Score = 34.4 bits (78), Expect = 0.047
Identities = 29/192 (15%), Positives = 59/192 (30%), Gaps = 52/192 (27%)
Query: 2 GAKVSRTDFEWTYTEEPHASRRKEILKK-----YP-EIKKLFGS------DPKFKYIVLS 49
+ W + + + I++ P E +K+F I+LS
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393
Query: 50 MV---LVQFVSMYF---LRNVS----WPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGH 99
++ +++ M L S P T++ S+ L + N H
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI-------PSIYLELKVKLENEYALH 446
Query: 100 SRPTANRIL---SLIANLP---IGIPFAITFKYYHLEHHRYQGD--EKLDTDIPTYMEAR 151
I+ ++ + P+ + Y H+ HH + E++
Sbjct: 447 -----RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT---------- 491
Query: 152 LFCTTFGKFIWV 163
LF F F ++
Sbjct: 492 LFRMVFLDFRFL 503
Score = 28.7 bits (63), Expect = 3.6
Identities = 20/163 (12%), Positives = 43/163 (26%), Gaps = 33/163 (20%)
Query: 127 YHLEHHRYQGDEKLDTDIPTYMEARLFCTTFGKFIWVCLQPFFYAF---------RPIFT 177
+H HH +D + E + + + V F F + I +
Sbjct: 1 HHHHHH-------MDFETG---EHQY---QYKDILSVFEDAFVDNFDCKDVQDMPKSILS 47
Query: 178 YPKAPTALELFNTVVQISFDVFICYFLGGRMLSYMLLGSLMAMGLHPVAGHFVSEHYMFK 237
+ + + V +F + + ++ + + +E
Sbjct: 48 KEEIDHIIMSKDAVSGTLR-LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS 106
Query: 238 KGYETYSYY-GPLNWITFNVGYHNEHHDFPAVPGSRLPMVKKI 279
Y L +N++ F SRL K+
Sbjct: 107 MMTRMYIEQRDRL---------YNDNQVFAKYNVSRLQPYLKL 140
>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 = 38.5 bits (89), Expect = 0.003
Identities = 68/425 (16%), Positives = 114/425 (26%), Gaps = 171/425 (40%)
Query: 18 PHASR-RKEILKKYPEIKKLFGSD--P--------KF-KYI--------------VLSMV 51
AS+ +++ K PE + F +D P KF Y+ VL++
Sbjct: 28 FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLC 87
Query: 52 LVQFVSMYFLRNVSWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILSLI 111
L +F + Y N IH +A L + T + LI
Sbjct: 88 LTEFENCYLEGN-----------------------DIHALAAKLL-QENDTTLVKTKELI 123
Query: 112 ANLPIGIPFAITFKYYHLEHHRYQGDEKLDTDIPTYM-------EARLFCTTFGKFIWVC 164
N Y R D + + A+L FG
Sbjct: 124 KN------------YITA---RIMAKRPFDKKSNSALFRAVGEGNAQLV-AIFGG----- 162
Query: 165 LQ----PFFYAFRPIF-TYPKAPTAL-----ELFNTVVQISFDVFICYFLGGRMLS---- 210
Q +F R ++ TY L E + +++ + D + G +L
Sbjct: 163 -QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 211 --------YM--------LLG---------SLMAMGLHP-----------------VAGH 228
Y+ L+G + +G P V
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV 281
Query: 229 FVSE---------------HYMFKKGYETYSYYGPLNWITFNVGYHNEH-HDFP----AV 268
++E +F G Y Y + + E+ P ++
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 269 PGSRLPMVKKIASEYYDNLPQHHSWSAVLYD----FVMDPDIGP----YA--RMKRKHR- 317
V+ ++ +LP L + V+ GP Y RK +
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS---GPPQSLYGLNLTLRKAKA 398
Query: 318 --GLD 320
GLD
Sbjct: 399 PSGLD 403
Score = 30.4 bits (68), Expect = 0.95
Identities = 48/276 (17%), Positives = 84/276 (30%), Gaps = 87/276 (31%)
Query: 4 KVSRTDFEWTY--TEEPHA-------------SRRKEILKKY---------PEIKK---- 35
+ T+FE Y + HA + KE++K Y P KK
Sbjct: 85 NLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSA 144
Query: 36 LFGS--DPKFKYIVLSMVLVQF-----VSMYF--LRNV--SWPVLLTVAYCFGGVINHSL 84
LF + + + ++ F YF LR++ ++ VL V
Sbjct: 145 LFRAVGEGNAQ------LVAIFGGQGNTDDYFEELRDLYQTYHVL--VGDLIKFSAETLS 196
Query: 85 MLSIHEMAHNLAFGH------------SRPTANRILSLIANLP-IGIP----FAITFKYY 127
L + F + P + +LS+ + P IG+ + +T K
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLL 256
Query: 128 HLEH----HRYQGDEKLDTDIPTYMEARLFCTT-----FGKFIWVCLQPFFY-AFRPIFT 177
+G + T A T F + + F+ R
Sbjct: 257 GFTPGELRSYLKGATGHSQGLVT---AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Query: 178 YPKAPTALELFNTVVQISFDVFICYFLGGRMLSYML 213
YP T+L ++++ S + + S ML
Sbjct: 314 YP--NTSLPP--SILEDSLEN------NEGVPSPML 339
Score = 30.0 bits (67), Expect = 1.5
Identities = 27/149 (18%), Positives = 43/149 (28%), Gaps = 56/149 (37%)
Query: 22 RRKEILKKYPEIKKLFGSDPKFKYIVLSMVLV----QFVSMYFLRNVSWPVL-LTVAYCF 76
++++ + K P K + +S LV V VS P L
Sbjct: 345 TQEQVQDY---VNKTNSHLPAGKQVEIS--LVNGAKNLV-------VSGPPQSL------ 386
Query: 77 GGVINHSLMLSIHEMAHNLAFGHSR-PTANRILSLIAN-LPIGIPFAITFKYYHLEHHRY 134
+ L L++ + SR P + R L LP+ PF H
Sbjct: 387 -----YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPF----------HSHL 431
Query: 135 QGD--EKLDTD--------------IPTY 147
+ ++ D IP Y
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVY 460
Score = 29.2 bits (65), Expect = 2.1
Identities = 43/238 (18%), Positives = 71/238 (29%), Gaps = 93/238 (39%)
Query: 83 SLMLSIHEM------AHNLAFGHSRPTANRI-LSLIANLP-----IGIPFAITFKYYHLE 130
S MLSI + + P ++ +SL+ N G P ++ Y L
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV-NGAKNLVVSGPPQSL----YGLN 390
Query: 131 HH--RYQGDEKLD-TDIPTYMEARLFCTTFGKFIWVCLQPFFYA-FRPIFTYPKAP---- 182
+ + LD + IP R + F F P+ +P
Sbjct: 391 LTLRKAKAPSGLDQSRIP--FSER--------------KLKFSNRFLPVA----SPFHSH 430
Query: 183 ---TALELFNTVVQ---ISFD-------VFICYFLGG--RMLSYMLLGSLMAMGLHPVAG 227
A +L N + +SF+ V+ F G R+LS + ++
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVY-DTFDGSDLRVLSGSISERIVDC------- 482
Query: 228 HFVSEHYMFKKGYETYSYYGPLNWITFNVGYHNEHH--DFPAVPG--SRL-PMVKKIA 280
+ + P+ W T H DF PG S L + +
Sbjct: 483 -------IIRL---------PVKWETTTQ--FKATHILDFG--PGGASGLGVLTHRNK 520
Score = 28.9 bits (64), Expect = 3.2
Identities = 32/210 (15%), Positives = 53/210 (25%), Gaps = 85/210 (40%)
Query: 24 KEILKKYPEIKKLF-GSDPKFKYIVLSMVLVQFVSMYFLRNVSWPVLLTVAYCFGGVINH 82
++ K + ++ +D FK ++ V + N PV LT+ FGG
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKD-TYGFSILDIV----INN---PVNLTIH--FGGEKGK 1682
Query: 83 SLMLSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITFKYYHLEHHRYQGDEKLDT 142
I E + F + + + + TF + ++ L
Sbjct: 1683 R----IRENYSAMIFETIVDGKLKTEKIFKEINEHST-SYTF----------RSEKGL-- 1725
Query: 143 DIPTYMEARLFCTTFGKFIWVCLQPFFYAFRPIFTYPKAPTALELFNTVVQISFDVFICY 202
L T F QP A +
Sbjct: 1726 ---------LSATQF-------TQP---A---LTL------------------------- 1738
Query: 203 FLGGRMLSYMLLGSLMAMGLHP----VAGH 228
+ L + GL P AGH
Sbjct: 1739 ------MEKAAFEDLKSKGLIPADATFAGH 1762
>1yqw_Q Periplasmic [NIFE] hydrogenase large subunit; NI-Fe hydrogenase
unready state, oxidoreductase; 1.83A {Desulfovibrio
fructosovorans} PDB: 1yrq_H 3h3x_Q 3cus_Q 3cur_H 1frf_L
Length = 549
Score = 30.2 bits (67), Expect = 1.1
Identities = 16/122 (13%), Positives = 33/122 (27%), Gaps = 5/122 (4%)
Query: 196 FDVFICYFLGGRMLSYMLLGSLMAMGLHPV---AGHFVSEHYMFKKGYETYSYYGPLNWI 252
D+ + +A G + F G T G ++ +
Sbjct: 268 PDLLAVAGFYKDWGGIGGTSNYLAFGEFATDDSSPSKHLATSQFPSGVITGRDLGKVDNV 327
Query: 253 -TFNVGYHNEHHDFPAVPGSRLPMVKKIASEYYD-NLPQHHSWSAVLYDFVMDPDIGPYA 310
+ ++ + + P +Y + H+SW ++GP A
Sbjct: 328 DLGAIYEDVKYSWYAPGGDGKHPYDGVTDPKYTKLDDKDHYSWMKAPRYKGKAMEVGPLA 387
Query: 311 RM 312
R
Sbjct: 388 RT 389
>1q47_A Semaphorin 3A; beta propeller, signaling protein; HET: NAG; 2.80A
{Mus musculus} SCOP: b.69.12.1
Length = 495
Score = 27.7 bits (60), Expect = 6.9
Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 1/59 (1%)
Query: 146 TYMEARLFCTTFGKFIWVCLQP-FFYAFRPIFTYPKAPTALELFNTVVQISFDVFICYF 203
T+++ARL C+ G F PK P +F T I +C +
Sbjct: 260 TFLKARLICSVPGPNGIDTHFDELQDVFLMNSKDPKNPIVYGVFTTSSNIFKGSAVCMY 318
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
0.327 0.142 0.460
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,306,162
Number of extensions: 318536
Number of successful extensions: 1005
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1002
Number of HSP's successfully gapped: 30
Length of query: 320
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 226
Effective length of database: 4,077,219
Effective search space: 921451494
Effective search space used: 921451494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 57 (26.2 bits)