RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12242
(498 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 = 1e-05
Identities = 42/297 (14%), Positives = 83/297 (27%), Gaps = 67/297 (22%)
Query: 238 ILLSKGQELEAQRAL--------SWLRGTIEVHDEMDEM-RAEYES--------IKLIPK 280
LLSK +E+ Q+ + +L I+ M Y ++ K
Sbjct: 70 TLLSKQEEM-VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK 128
Query: 281 --VSLREMFTNA-----QLRIPLFIS---M-----TVMVAQQLSGINAVIYFSTKIFTMA 325
VS + + +LR + + T + KIF
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF--- 185
Query: 326 QLSDTAAQWATLG-MGTMNVVMTLVSLVLVEISGRKTLLLIGFMGVFVVTVLLTIVMQFV 384
W L + V+ ++ +L +I T + + +I +
Sbjct: 186 --------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH--SIQAELR 235
Query: 385 EIFVMSIFCIILVIMFVVFFAVGPGSIPWFLVSELFSQSARPLATSLAVSINWTANFIVG 444
+ + L+++ V F+ S + L T+ + +F+
Sbjct: 236 RLLKSKPYENCLLVLLNV-------QNAKAW--NAFNLSCKILLTTRFKQV---TDFLSA 283
Query: 445 LGFLPIESIIHGYVFTIFAVLQAMFVLFI---YKKVPETKNKTQ----EEIAAMFRQ 494
I H T V + + ++ + +P T IA R
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKS-LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei
transport protein; HET: BNG; 3.14A {Escherichia coli}
PDB: 3o7p_A*
Length = 438
Score = 42.2 bits (99), Expect = 3e-04
Identities = 43/320 (13%), Positives = 95/320 (29%), Gaps = 21/320 (6%)
Query: 94 SIFCAGGIIGGAATGYVAERFGRKGGLLINNVFVVLAALLQGFSKAFSSYEMIILGRFLI 153
S F G I G + ++ K G++ L A L + +Y + ++G F+I
Sbjct: 68 SAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNYTLFLVGLFII 127
Query: 154 GI-NSGLNAGLAPMYLAEISPVHLRGAVGTVYQLVITISIVISQILGLGGLLGTADGWPL 212
L P ++ + P + Q + +I+ + G +L
Sbjct: 128 AAGLGCLETAANP-FVTVLGPESSGHFRLNLAQTFNSFGAIIAVVFGQSLILSNVPHQSQ 186
Query: 213 LLAFTLVPGIYQMITLPFCPESPKYILLSKGQELEAQRALSWLRGTIEVHDEMDEMRAEY 272
+ + P S + + + L L + +
Sbjct: 187 DVLDKMSPEQLSAYKHSL-VLSVQTPYMIIVAIVLLVALLIMLTKFPALQSDNHS----- 240
Query: 273 ESIKLIPKVSLREMFTNAQLRIPLFISMTVMVAQQLSGINAVIYFSTKIFTMAQLSDTAA 332
++ + SL + R + + AQ + Y +I M + AA
Sbjct: 241 DAKQGSFSASLSRLARIRHWRWAVLAQFCYVGAQTACWSYLIRYAVEEIPGMT--AGFAA 298
Query: 333 QWATLGMGTMNVVMTLVSLVLVEISGRKTLLLIGFMGVFVVTVLLTIVMQFVEIFVMSIF 392
+ T M + + ++ + K L + + + + + +
Sbjct: 299 NYLTGTMVCFFIGRFTGTWLISRFAPHKVLAAYALIAMALCLISAFAGGH------VGLI 352
Query: 393 CIILV-----IMFVVFFAVG 407
+ L I + F++G
Sbjct: 353 ALTLCSAFMSIQYPTIFSLG 372
>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 = 42.3 bits (99), Expect = 4e-04
Identities = 64/409 (15%), Positives = 116/409 (28%), Gaps = 125/409 (30%)
Query: 22 SQGLNGKLAFAISASALGSSFQHGYNTGVFNAPQKLISEWIVDVLKNRSIADGTVNPVIE 81
++ L+ + + A + F G N I EW L+N S +
Sbjct: 192 AETLSELIRTTLDAEKV---FTQGLN----------ILEW----LENPSNTPDK--DYLL 232
Query: 82 QSQVTM--IFAVAVSIFCAGGIIGGAATGYVAERFGRKGGLLINNVFVVLAALL------ 133
++ I + ++ + + G G + G ++ +V A +
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK---GATGHSQGLVTAVAIAETDSW 289
Query: 134 QGFSKAFSSYEMIILGRFLIGINSGL---NAGLAPMYLAEI--------SP-VHLRGAVG 181
+ F + + +L F IG+ N L P L + SP + +
Sbjct: 290 ESFFVSVRKA-ITVL--FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN--- 343
Query: 182 TVYQLVITISIVISQILGLGGLLGTADGWPLLLAFTLVPGIYQM-ITLPFCPESPKYILL 240
+T V + L + +LV G + ++ P P+S L
Sbjct: 344 ------LTQEQVQDYVNKTNSHLPAGK----QVEISLVNGAKNLVVSGP--PQS----LY 387
Query: 241 SKGQELEAQRALSWLRGTIEVHDEMDEMRAEYESIKLIPKVSLR---------------- 284
L +A S +D+ R + K K S R
Sbjct: 388 GLNLTLRKAKAPS----------GLDQSRIPFSERK--LKFSNRFLPVASPFHSHLLVPA 435
Query: 285 ------------EMFTNAQLRIPLFISMTVMVAQQLSG-INAVIYFSTKIFTMA----QL 327
F ++IP++ + + LSG I+ I I +
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV--DCIIRLPVKWETT 493
Query: 328 SDTAAQWA-TLGMGTMNVVMTLVSLVLVEISGRKTLLLIGFMGVFVVTV 375
+ A G G + + L G GV V+
Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNK---DGT---------GVRVIVA 530
Score = 42.0 bits (98), Expect = 5e-04
Identities = 41/273 (15%), Positives = 76/273 (27%), Gaps = 106/273 (38%)
Query: 14 SPSGNRPPSQGLNGKL-----AFAISAS------------ALGSSFQHGY----NTGVFN 52
+P R +G G A AI+ + A+ F G +
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 53 APQKLISEWIVDVLKNRSIADGTVNP-----V--IEQSQV-TMIFAVAVSIFCAGGIIGG 104
P ++ + S+ + P + + Q QV + + +
Sbjct: 319 LPPSILED---------SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQV--- 366
Query: 105 AATGYVAERFGRKGGLLIN--NVFVV------LAALLQGFSKA------------FSSYE 144
++ L+N VV L L KA FS +
Sbjct: 367 ----EIS---------LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERK 413
Query: 145 MIILGRFLIGINSGLNAGLAPMYLAEIS-PVH---LRGAVGTVYQLVITISIVISQILGL 200
+ RFL P ++ P H L A + + ++ ++ +
Sbjct: 414 LKFSNRFL------------P-----VASPFHSHLLVPASDLINKDLVKNNVSFN----- 451
Query: 201 GGLLG-----TADGWPL-LLAFTLVPGIYQMIT 227
+ T DG L +L+ ++ I I
Sbjct: 452 AKDIQIPVYDTFDGSDLRVLSGSISERIVDCII 484
Score = 35.4 bits (81), Expect = 0.057
Identities = 41/262 (15%), Positives = 81/262 (30%), Gaps = 99/262 (37%)
Query: 51 FNAPQKLISEWIVDVLKNRSIADGTVNPVIEQSQVTMIFAVAVSIFCAGGIIGGAATGYV 110
F + + L+S T +Q + + + F
Sbjct: 1719 FRSEKGLLSA--------------TQF-----TQPA-LTLMEKAAF-------------- 1744
Query: 111 AERFGRKGGLLINNVFVVLAALLQGFSKAFSSYEMIILGRFLIGINSGL--NAGLAPMYL 168
E KG + + F A G S LG + + L A + M +
Sbjct: 1745 -EDLKSKGLIPADATF---A----GHS----------LGEY-----AALASLADV--MSI 1779
Query: 169 AE-ISPVHLRGAVGTVYQLVITISIVISQILGLGGLLGTADGWPLLLAFTLVPGIYQMIT 227
+ V RG T+ V LG ++ ++A + PG +
Sbjct: 1780 ESLVEVVFYRGM--TMQVAVP------------RDELGRSNY--GMIA--INPG---RVA 1818
Query: 228 LPFCPESPKYIL--LSK--GQELEA--------QRALSWLRGTIEVHDEMDEMRAEYESI 275
F E+ +Y++ + K G +E Q + G + D + + + +
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA---GDLRALDTVTNV-LNFIKL 1874
Query: 276 KLIPKVSLREMFTNAQLRIPLF 297
+ I + L++ + ++ LF
Sbjct: 1875 QKIDIIELQKSLSLEEVEGHLF 1896
Score = 29.2 bits (65), Expect = 4.4
Identities = 18/82 (21%), Positives = 27/82 (32%), Gaps = 19/82 (23%)
Query: 423 SARPLA-------TSLAVSINWTANFIVGL----GFL-----PIESIIHGYVFTIFAVLQ 466
S RPL L V TA+F + F P E T A L
Sbjct: 5 STRPLTLSHGSLEHVLLVP---TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV 61
Query: 467 AMFVLFIYKKVPETKNKTQEEI 488
F+ ++ V +K +++
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQV 83
Score = 29.2 bits (65), Expect = 4.6
Identities = 51/305 (16%), Positives = 92/305 (30%), Gaps = 108/305 (35%)
Query: 243 GQELEAQRALSWLRGTIEVHDEMDEMRAEYESIKLIPKVSLREMFTNAQLRIPLFISMTV 302
GQ G + D +E+R Y+ V + ++ + + I T+
Sbjct: 162 GQ------------GNTD--DYFEELRDLYQ----TYHVLVGDLIKFSAETLSELIRTTL 203
Query: 303 MVAQQLS-GIN-----------------AVIYFSTKIFTMAQLSDTAAQWA----TLGM- 339
+ + G+N I S + + QL A + LG
Sbjct: 204 DAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL----AHYVVTAKLLGFT 259
Query: 340 ---------GTMNVVMTLVSLVLVEISG---------RKTLLLIGFMGV-----FVVTVL 376
G LV+ V + + RK + ++ F+GV + T L
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 377 -LTIVMQFVEIF--VMSIFCIILVIMFVVFFAVGPGSIPWFLVSELFSQSARPLATSLAV 433
+I+ +E V S M + + V + +++ L V
Sbjct: 320 PPSILEDSLENNEGVPS-------PMLSI---SN---LTQEQVQDYVNKTNSHLPAGKQV 366
Query: 434 SI---NWTANFIVGLGFLPIESIIHGYVFTIFAVLQAMFVLFIYK-KVPETKNKTQEEIA 489
I N N +V G P +S L L + K K P ++++
Sbjct: 367 EISLVNGAKNLVVS-G--PPQS------------LYG-LNLTLRKAKAPSGLDQSRIP-- 408
Query: 490 AMFRQ 494
F +
Sbjct: 409 --FSE 411
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 37.3 bits (87), Expect = 0.010
Identities = 50/400 (12%), Positives = 118/400 (29%), Gaps = 49/400 (12%)
Query: 108 GYVAERFGRKGGLLINNVFVVLAALLQGFSKAF-SSYEMIILGRFLIGINSGLNAGLAPM 166
G V++R + L + L GF SS ++ + FL G G+
Sbjct: 83 GSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWFQGMGWPPCGR 142
Query: 167 YLAEISPVHLRGAVGTVYQLVITISIVISQILGLGGLLGTADGWPLLLAFTLVPGI-YQM 225
+ RG + +V+ + I +L + + W L I +
Sbjct: 143 TMVHWWSQKERGGIVSVWNCAHNVGGGIPPLL-FLLGMAWFNDWHAALYMPAFCAILVAL 201
Query: 226 ITLPFCPESPKYILLSKGQELEAQRALSWLRGTIEVHDEMDEMRAEYESIKLIPKVSLRE 285
++P+ L +E + +D D+ + E ++ ++
Sbjct: 202 FAFAMMRDTPQSCGLPPIEEYK--------------NDYPDDYNEKAEQELTAKQIFMQY 247
Query: 286 MFTNAQLRIPLFISMTVMVAQQLSGINAVIYF-----STKIFTMAQLSDTAAQWATLGMG 340
+ N + +A + + Y T + + + + WA
Sbjct: 248 VLPN---------KLLWYIAIANVFVYLLRYGILDWSPTYLKEVKHFALDKSSWAYFLYE 298
Query: 341 TMNVVMTLVSLVLVE--ISGRKTLLLIGFMGVFVVTVLLTIVMQFVEIFVMSIFCIILVI 398
+ TL+ + + G + + FM + + ++ + + ++ +
Sbjct: 299 YAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIV-----YWMNPAGNPTVDMICM 353
Query: 399 MFVVFFAVGPGSIPWFLVSELFSQSARPLATSLAVSINWTANFIVGLGFLPIESII---H 455
+ + F GP + EL + A A + I
Sbjct: 354 IVIGFLIYGPVMLIGLHALELAPKKAAGTAAGF---TGLFGYLGGSVAASAIVGYTVDFF 410
Query: 456 GY-----VFTIFAVLQAMFVLFIYKKVPETKNKTQEEIAA 490
G+ V ++L + ++ + + +E+
Sbjct: 411 GWDGGFMVMIGGSILAVILLIVVMIGEKRRHEQLLQELVP 450
Score = 33.5 bits (77), Expect = 0.15
Identities = 17/96 (17%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 90 AVAVSIFCAGGIIGGAATGYVAERFGRKGGLLINNVFV--VLAALLQGFSKAFSSYEMII 147
+ A ++ GI G G+++++ R F+ V A + + + + +
Sbjct: 291 SWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDM 350
Query: 148 LGRFLIGINSGLNAGLAPMYLAEISPVHLRGAVGTV 183
+ +IG L ++ E++P + A GT
Sbjct: 351 ICMIVIGFLIYGPVMLIGLHALELAP---KKAAGTA 383
>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 = 34.5 bits (78), Expect = 0.028
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 14/38 (36%)
Query: 3 EKEA----ENGSKPASPSGNRPPSQGLNGKLAFAISAS 36
EK+A + K + + P A AI A+
Sbjct: 18 EKQALKKLQASLKLYAD-DSAP---------ALAIKAT 45
>1muk_A Minor core protein lambda 3; single subunit polymerase fold,
fingers, PALM, thumb, right hand configuration, viral
protein; 2.50A {Reovirus SP} SCOP: e.8.1.4 PDB: 1mwh_A*
1n1h_A* 1n35_A* 1n38_A* 1uon_A* 2cse_1
Length = 1267
Score = 30.8 bits (69), Expect = 1.2
Identities = 24/107 (22%), Positives = 40/107 (37%), Gaps = 27/107 (25%)
Query: 253 SWLRGTIEV------HDEMDE--MRAEYESIKLIPKVSLREMFTNAQLRIPLFISMTVMV 304
+W + D + + MR++Y + + +LRE + +P F + V
Sbjct: 428 TWYLAAARMAAQPRTWDPLFQAIMRSQYVTARGGSGAALRESLYAINVSLPDFKGLPVKA 487
Query: 305 AQQLSGINAVIYFSTKIFTMAQLSD------TAAQWATLGMGTMNVV 345
+TKIF AQL++ + A A MG N V
Sbjct: 488 -------------ATKIFQAAQLANLPFSHTSVAILADTSMGLRNQV 521
>3kp9_A Vkorc1/thioredoxin domain protein; warfarin, disulfide formation,
blood coagulation, oxidoreduc blood
coagulation,oxidoreductase; HET: U10; 3.60A
{Synechococcus SP}
Length = 291
Score = 29.2 bits (64), Expect = 3.2
Identities = 7/94 (7%), Positives = 31/94 (32%)
Query: 344 VVMTLVSLVLVEISGRKTLLLIGFMGVFVVTVLLTIVMQFVEIFVMSIFCIILVIMFVVF 403
+ + ++++ + K G+ + M ++ + V+ FC+ ++
Sbjct: 81 LGVLALAVLPDGLPLVKRWRWPALFGLVSAMTAFEMYMLYLMVAVLRQFCMYCTTAIILV 140
Query: 404 FAVGPGSIPWFLVSELFSQSARPLATSLAVSINW 437
+G ++ + + + + +
Sbjct: 141 AGLGLVTVLGHRWLDGGKLAFSYILVAFLTLVTT 174
>1vj7_A Bifunctional RELA/SPOT; HD domain, alpha beta 2-layer sandwich,
helix bundle, mangan PPG2':3'P, (P)PPGPP, PPGPP; HET:
GDP GPX; 2.10A {Streptococcus dysgalactiae subsp} SCOP:
a.211.1.1 d.218.1.8
Length = 393
Score = 29.1 bits (66), Expect = 3.2
Identities = 6/50 (12%), Positives = 21/50 (42%), Gaps = 8/50 (16%)
Query: 241 SKGQELEAQRALSWLRGTIEVHDEMDEMRAEY-ESIKLIPKVSLREMFTN 289
K + E + ++W++ +E+ D + ++ +S++ +
Sbjct: 351 GKVNQAEQKVGMNWIKELVELQDASNGDAVDFVDSLEH-------HHHHH 393
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene,
replication block, mutagenesis, transferase/electron
transport/DNA complex; HET: DNA 2DT 8FG; 2.10A
{Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB:
1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A*
1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A*
1zyq_A* 2ajq_A*
Length = 698
Score = 28.3 bits (63), Expect = 7.3
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 261 VHDEMD-EMRAE--YESIKLIPKVSLREMFTNAQLRIPL 296
VHDE+ R E + + + ++R + + R L
Sbjct: 646 VHDEIQVGCRTEEIAQVVIETAQEAMRWVGDHWNFRCLL 684
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 27.6 bits (61), Expect = 9.9
Identities = 19/146 (13%), Positives = 45/146 (30%), Gaps = 6/146 (4%)
Query: 86 TMIFAVAVSIFCAGGIIGGAATGYVAERFGRKGGLLINNVFVVLAALLQGFSKAFSSYEM 145
T +F ++ + R G K LL+ + + + F +S
Sbjct: 258 TRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSF---ATSALE 314
Query: 146 IILGRFLIGINSGLNAGLAPMYLAEISPVHLRGAVGTVYQLVIT-ISIVISQILG--LGG 202
+++ + L Y+ V + V ++++ +L +
Sbjct: 315 VVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYE 374
Query: 203 LLGTADGWPLLLAFTLVPGIYQMITL 228
+G + +L L + + TL
Sbjct: 375 SIGFQGAYLVLGLVALGFTLISVFTL 400
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
0.325 0.139 0.402
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,483,841
Number of extensions: 470465
Number of successful extensions: 1193
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1174
Number of HSP's successfully gapped: 39
Length of query: 498
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 400
Effective length of database: 3,965,535
Effective search space: 1586214000
Effective search space used: 1586214000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (26.7 bits)