RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11112
(632 letters)
>3ig5_A Glutamate-cysteine ligase; glutathione, ATP-grAsp, ATP-binding,
glutathione biosynthesis, nucleotide-binding,
phosphoprotein; HET: GLU PGE; 2.10A {Saccharomyces
cerevisiae} PDB: 3ig8_A* 3lvv_A* 3lvw_A*
Length = 692
Score = 525 bits (1352), Expect = e-179
Identities = 184/540 (34%), Positives = 256/540 (47%), Gaps = 120/540 (22%)
Query: 33 ILFPVYKDVNTPQPFIE--DLSQYGDQDKVSQQASLPDHVYLDAMGFGMGCCCLQVTFQA 90
+ P+YKD+ TP+ D + +DK ++ AS P +Y+D+MGFGMGC CLQVTFQA
Sbjct: 214 MNVPMYKDIATPETDDSIYDRDWFLPEDKEAKLASKPGFIYMDSMGFGMGCSCLQVTFQA 273
Query: 91 CNISEAKTLYDQLTPLCPIMNGTYFIFHSELSVFYNSLRTERILYFIQNASPIFRGYLTD 150
NI++A+ LYD L PIM S A+P F+G+L D
Sbjct: 274 PNINKARYLYDALVNFAPIMLA--------FSA----------------AAPAFKGWLAD 309
Query: 151 VDCRWNVISGSVDCRTREERGLEPLR----------------KNRFVIPKSRYDSIDSYL 194
D RWNVISG+VD RT +ERG+ PL IPKSRY S+D +L
Sbjct: 310 QDVRWNVISGAVDDRTPKERGVAPLLPKYNKNGFGGIAKDVQDKVLEIPKSRYSSVDLFL 369
Query: 195 SPE--HGEKYNDVPLIYDRDIYNQLIQNG---IDPMLSQHIAHLFIRDTVSLFNEKVNQN 249
YND + + + +L++N +D L++H AHL+IRD VS F E +NQ+
Sbjct: 370 GGSKFFNRTYNDTNVPINEKVLGRLLENDKAPLDYDLAKHFAHLYIRDPVSTFEELLNQD 429
Query: 250 DEIDTDHFENIQSTNWQTMRFKPPPPNS------SIGWRVEFRPCETQLTDFENAAFVCF 303
++ ++HFENIQSTNWQT+RFKPP + S GWRVEFRP E QL DFENAA+
Sbjct: 430 NKTSSNHFENIQSTNWQTLRFKPPTQQATPDKKDSPGWRVEFRPFEVQLLDFENAAYSVL 489
Query: 304 VVLLTRIILSY--NLNFVIPISKVDENMKRAQKRDALNREKFWFRRDCAIKKTGGEDSSI 361
+ L+ IL++ N+N I +SKV ENMK A RDA+ EKF +++
Sbjct: 490 IYLIVDSILTFSDNINAYIHMSKVWENMKIAHHRDAILFEKFHWKKSFR----------- 538
Query: 362 PGDSQQSRPPMDGTPETNPLYMNGNSVYSGSDEAKYNGATNNNNNENIKQDGGEEYVEMT 421
D ET + + ++ + +
Sbjct: 539 ----------NDTDVETEDYSI--SEIFHNPENGIF------------------------ 562
Query: 422 INEIINGKEGVFPGLAPLISRYLISMDVD------TDTHCTIQQYLKLIQNRASGEILTT 475
P I + D + H + YLKLI +RASGE+ TT
Sbjct: 563 ------------PQFVTPILCQKGFVTKDWKELKHSSKHERLYYYLKLISDRASGELPTT 610
Query: 476 ASWIRSFVTSHPAYKQDSVVSEEITYDLLLKSHHIQTGRTPYNDVPLIYDRDIYNQLIQN 535
A + R+FV HP YK DS +S+ I YDLL + ++ +I + +N
Sbjct: 611 AKFFRNFVLQHPDYKHDSKISKSINYDLLSTCDRLTHLDDSKGELTSFLGAEIAEYVKKN 670
Score = 87.1 bits (215), Expect = 6e-18
Identities = 24/66 (36%), Positives = 40/66 (60%), Gaps = 3/66 (4%)
Query: 517 YNDVPLIYDRDIYNQLIQNG---IDPMLSQHIAHLFIRDTVSLFNEKVNQNDEIDTDHFE 573
YND + + + +L++N +D L++H AHL+IRD VS F E +NQ+++ ++HFE
Sbjct: 379 YNDTNVPINEKVLGRLLENDKAPLDYDLAKHFAHLYIRDPVSTFEELLNQDNKTSSNHFE 438
Query: 574 VPNSVV 579
S
Sbjct: 439 NIQSTN 444
Score = 46.2 bits (109), Expect = 3e-05
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 5/57 (8%)
Query: 576 NSVVSEEITYDLLLKSHHIQTG---RTPCPQLLGKCLIQKSKTRERIPTAVSKQYNC 629
+S +S+ I YDLL + + LG + ++ P+ SK
Sbjct: 627 DSKISKSINYDLLSTCDRLTHLDDSKGELTSFLGAEI--AEYVKKNKPSIESKCDKL 681
>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 = 54.5 bits (130), Expect = 1e-07
Identities = 90/653 (13%), Positives = 184/653 (28%), Gaps = 196/653 (30%)
Query: 38 YKDV--NTPQPFIEDLSQYGDQD---KVSQQASLPDHVYLDAMGFGMGCCCLQVTFQACN 92
YKD+ F+++ QD + + + DH+ +
Sbjct: 18 YKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEI-DHIIM----------------SKDA 60
Query: 93 ISEAKTLYDQLTPLCPIMNGTYFIFHSE-LSVFYNSLRTERILYFIQNASPIFRGYLTDV 151
+S L+ L F E L + Y L I + S + R Y+
Sbjct: 61 VSGTLRLFWTL---LSKQEEMVQKFVEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQR 116
Query: 152 DCRWNVIS----GSVDCRTREE------RGLEPLRKNRFVIP-------KS--------- 185
D +N +V +R + + L LR + V+ K+
Sbjct: 117 DRLYNDNQVFAKYNV---SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 186 -----------------RYDSIDSYLSPEHGEKYNDVPLIYDRDIYNQLIQNGIDPMLSQ 228
+S ++ L E + D + + + + L
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVL-----EMLQKLLYQIDPN-WTSRSDHSSNIKLRI 227
Query: 229 HIAHLFIRDTVSLFNEKVNQNDEIDTDHFENIQSTN-WQTMRFKPPPPNSSIGWRVEFRP 287
H +R L K +N + N+Q+ W
Sbjct: 228 HSIQAELRR---LLKSKPYENCLLVLL---NVQNAKAWNAFNLS---------------- 265
Query: 288 CET-------QLTDFENAAFVCFVVL------LT----RIILSYNLNFVIPISKVDENMK 330
C+ Q+TDF +AA + L LT + +L L+ + +
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD--CRPQDLPREVL 323
Query: 331 R----------AQKRDALNREKFWFRRDCAIKKTGGEDSSIPGDSQQSRPPMDGTPETNP 380
RD L W +C K T +SS+ + + E
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCD-KLTTIIESSL--NVLEP-------AEYRK 373
Query: 381 LYMNGNSVYSGSDEAKYNGATNNNNNENIK--------QDGGEEYVEMTINEIIN----- 427
++ SV+ + +I D + V + +N++
Sbjct: 374 MFDR-LSVF--------------PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Query: 428 --GKEGVFPGLAPLISRYLISMDVDTDTHCTIQQYLKLIQNRASGEILTTASWIRSFVTS 485
KE + + + ++ + H +I + + + S ++ ++ + S
Sbjct: 419 KQPKESTI-SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL--IPPYLDQYFYS 475
Query: 486 HPAY-----KQDSVVSE--EITYDL-LLKSHHIQTGRTPYND----VPLIYDRDIYNQLI 533
H + + ++ + D L+ T +N + + Y I
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS-TAWNASGSILNTLQQLKFYKPYI 534
Query: 534 QNGIDPMLSQHIAHL--FIRDTVSLFNEKVNQNDEIDTDHFEV--PNSVVSEE 582
+ DP + + + F+ E + + D + + + EE
Sbjct: 535 CD-NDPKYERLVNAILDFLPK----IEENLICSKYTDLLRIALMAEDEAIFEE 582
Score = 29.4 bits (65), Expect = 4.1
Identities = 22/139 (15%), Positives = 44/139 (31%), Gaps = 39/139 (28%)
Query: 508 HHI--QTGRTPYNDVPLIYDRDIYNQLIQNGIDPMLSQHIAHLFIRD----TVSLFNEKV 561
HH+ +TG Y Y ++ D F+ + V + +
Sbjct: 5 HHMDFETGEHQYQ----------YKDILSVFEDA---------FVDNFDCKDVQDMPKSI 45
Query: 562 NQNDEIDTDHFEVPNSVVSEEITYDLLLKSHHIQTGRTPCPQLLGKC-------LIQKSK 614
+EID ++V + LL + + + L+ K
Sbjct: 46 LSKEEID-HIIMSKDAVSGTLRLFWTLLSK-----QEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 615 TRERIPTAVSKQYN-CLER 632
T +R P+ +++ Y +R
Sbjct: 100 TEQRQPSMMTRMYIEQRDR 118
>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 = 45.4 bits (107), Expect = 6e-05
Identities = 86/539 (15%), Positives = 133/539 (24%), Gaps = 253/539 (46%)
Query: 37 VYKDVNTPQPFIEDL------------SQYGDQDKVSQQ-----------ASLPDHVYLD 73
+Y+ T + DL D +KV Q ++ PD YL
Sbjct: 176 LYQ---TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 74 AMGFGMGCCCLQVTFQACN-ISEAKTLYDQLTP--LCPIMNGTYFIFHSELSV------- 123
++ + Q + + AK L TP L + G HS+ V
Sbjct: 233 SIPISCPLIGV---IQLAHYVVTAKLL--GFTPGELRSYLKGA--TGHSQGLVTAVAIAE 285
Query: 124 ------FY-NSLRTERILYFIQNASPIFRGYLTDVDCRWNVISGSVDCRTREERGLEPLR 176
F+ + + +L+FI G R E L
Sbjct: 286 TDSWESFFVSVRKAITVLFFI--------G-----------------VRCYEAYPNTSLP 320
Query: 177 KNRFVIPKSRYDSIDSYLSPEHGEKYNDVPLIYDRDIYNQLIQNGIDPMLSQHIAHLFIR 236
P DS+ E+ E VP PMLS I
Sbjct: 321 ------PSILEDSL------ENNEG---VP----------------SPMLS-------IS 342
Query: 237 DTVSLFNEKVNQNDEIDTDHFENIQSTNWQTMRFKPPPPNSSIGWRVEFRPCETQLTDFE 296
+ L E+V + + TN P +
Sbjct: 343 N---LTQEQV----------QDYVNKTN------SHLPAGKQV----------------- 366
Query: 297 NAAFVCFVVLLTRIILSYN--LNFVI---PISKVDENMKRAQKRDALNREKFWFRRDCAI 351
+ L N N V+ P S L R+ A
Sbjct: 367 ------EISL-------VNGAKNLVVSGPPQS--------------LYGLNLTLRKAKA- 398
Query: 352 KKTGGEDSSIPGDSQQSRPPMDGT---PETNPLYMNGNSVYSGSDEAKYNGATNNNNNEN 408
+G + S IP S+ R P +P +S A+ +
Sbjct: 399 -PSGLDQSRIPF-SE--RKLKFSNRFLPVASPF----HSHL-------LVPAS-----DL 438
Query: 409 IKQDGGEEYVEMTINEIINGKEGVFP------G---------LAPLISRYLISMDVD--- 450
I +D + V N K+ P G ++ I +I + V
Sbjct: 439 INKDLVKNNVS------FNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Query: 451 ----TDTHC------TIQQYLKLIQNRASGEILTTASWIR----SFVTSHPA----YKQ 491
TH L G + +R + +P +KQ
Sbjct: 493 TTQFKATHILDFGPGGASGLGVLTHRNKDG------TGVRVIVAGTLDINPDDDYGFKQ 545
Score = 38.5 bits (89), Expect = 0.007
Identities = 58/398 (14%), Positives = 112/398 (28%), Gaps = 145/398 (36%)
Query: 211 RDIYNQLIQNGIDPMLSQHIAHLFIRDTVSLFNEKVNQNDEIDTDHFENIQSTNWQTMRF 270
RD+Y + I+ + +E + + + + + W
Sbjct: 174 RDLYQ----------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 271 KPPPPN--SSIGWRVEFRP--CETQLTDFENAA----------FVCFVVLLTRI--ILSY 314
P + SI + P QL + A +++
Sbjct: 224 NTPDKDYLLSIP--ISC-PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT- 279
Query: 315 NLNFVIPISKVD------ENMKRAQKRDALNREKFW--FRRDCAIKKTGGEDSSIPGDSQ 366
+ I++ D ++++A L F+ R
Sbjct: 280 ----AVAIAETDSWESFFVSVRKAIT--VL----FFIGVR------------------CY 311
Query: 367 QSRPPMDGTP----------ETNPLYMNGNSVYSGSDEA--KYNGATNNNNNENIKQDGG 414
++ P P E P M S+ + + E Y TN
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPM--LSISNLTQEQVQDYVNKTN-------SHLPA 362
Query: 415 EEYVEMTINEIINGKE-----GVFP----GLAPLISRYLISMDVDTDTHCTIQQYLKLIQ 465
+ VE++ ++NG + G P GL + + +D Q
Sbjct: 363 GKQVEIS---LVNGAKNLVVSG-PPQSLYGLNLTLRKAKAPSGLD--------------Q 404
Query: 466 NRA--SGEILTTASWIRSF--VTS--H-----PAYKQDSVVSEEITYDLLLKSHHIQTGR 514
+R S L ++ F V S H PA D + + + ++ + IQ
Sbjct: 405 SRIPFSERKLKFSN---RFLPVASPFHSHLLVPA--SDLINKDLVKNNVSFNAKDIQ--- 456
Query: 515 TPYNDVPLIYD----RDIYNQLIQNGIDPMLSQHIAHL 548
+P +YD D+ +++ I + I L
Sbjct: 457 -----IP-VYDTFDGSDL--RVLSGSISERIVDCIIRL 486
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 32.2 bits (73), Expect = 0.64
Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 23/77 (29%)
Query: 139 NASPIFRGYLTDVDCR---------WNV--ISGSVDCRTREERGLEPLRKNRFVIPKSRY 187
A P L +D + N+ + G V + + RG+E R + ++P
Sbjct: 573 AAIPEQGIELEHIDSKSEFAHRIMLTNILRMMGCV-KKQKSARGIET-RPAQVILP---- 626
Query: 188 DSIDSYLSPEHGEKYND 204
+SP HG D
Sbjct: 627 ------MSPNHGTFGGD 637
>2ict_A Antitoxin HIGA; helix-turn-helix, structural genomics, PSI-2,
protein struct initiative, northeast structural genomics
consortium, NESG; 1.63A {Escherichia coli} SCOP:
a.35.1.3 PDB: 2icp_A
Length = 94
Score = 29.2 bits (66), Expect = 0.95
Identities = 6/24 (25%), Positives = 13/24 (54%)
Query: 421 TINEIINGKEGVFPGLAPLISRYL 444
T + ++ GK + P +A +S +
Sbjct: 37 TASRLLTGKAALTPEMAIKLSVVI 60
>3cec_A Putative antidote protein of plasmid maintenance; structural
genomics, joint center for structural genomics, J
protein structure initiative; HET: MSE; 1.60A {Nostoc
punctiforme}
Length = 104
Score = 28.8 bits (65), Expect = 1.6
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 421 TINEIINGKEGVFPGLAPLISRYL 444
TI E+ING+ + +A + + L
Sbjct: 47 TIQEVINGQRSITVDIAIRLGKAL 70
>2y8v_A CHIC, class III chitinase, putative; afchic, hydrolase; 1.99A
{Aspergillus fumigatus}
Length = 290
Score = 30.3 bits (68), Expect = 1.6
Identities = 16/111 (14%), Positives = 40/111 (36%), Gaps = 8/111 (7%)
Query: 433 FPGLAPLISRYLIS-MDVDTDTHCTIQQYLKLIQ---NRASGEILTTASWIRSFVTSHPA 488
+ L ++ R+ + +D+D + ++ ++LI + + T + + + +
Sbjct: 114 YQPLLAMVRRHQLDGLDLDVEEEMSLPGIIRLIDRLKLDLGDDFIITLAPVAAALLGIGN 173
Query: 489 YKQDSVVSEEITYDLLLKSHHIQTGRTPYNDVPLIYDRDIYNQLIQNGIDP 539
E + ++ Q YN L D +Y ++ G P
Sbjct: 174 LSGFDYRQLEQQRGSKISWYNAQF----YNGWGLAEDPRMYAAIVAQGWSP 220
>3trb_A Virulence-associated protein I; mobIle and extrachromosomal element
functions, DNA binding P; 2.00A {Coxiella burnetii}
Length = 104
Score = 28.1 bits (63), Expect = 3.2
Identities = 4/24 (16%), Positives = 11/24 (45%)
Query: 421 TINEIINGKEGVFPGLAPLISRYL 444
+ I+NG + A ++++
Sbjct: 43 RVTAILNGARSITADTALRLAKFF 66
>3n91_A Uncharacterized protein; domain of unknown function (DUF1735),
structural genomics, J center for structural genomics,
JCSG; HET: 2PE; 2.40A {Bacteroides ovatus}
Length = 323
Score = 29.4 bits (65), Expect = 3.3
Identities = 22/134 (16%), Positives = 40/134 (29%), Gaps = 13/134 (9%)
Query: 351 IKKTGGEDSSIPGDSQQSRPPMDGTPETNPL----------YMN---GNSVYSGSDEAKY 397
+ G DS + G P + + + L Y+N G + G D A
Sbjct: 133 MTNVQGADSILQGKPVVENPVLTNAGDWSILPQNFVLYAVKYVNPWHGEYLRRGIDHATV 192
Query: 398 NGATNNNNNENIKQDGGEEYVEMTINEIINGKEGVFPGLAPLISRYLISMDVDTDTHCTI 457
G + + + E T + N + Y + + D CT+
Sbjct: 193 AGTSKDIIRHEQFVENDEVVNISTKSMKDNLLTLKTKDESGKDISYTVRLSFAEDGSCTV 252
Query: 458 QQYLKLIQNRASGE 471
+ + SG+
Sbjct: 253 HSGSQNVVVSGSGK 266
>2eby_A Putative HTH-type transcriptional regulator YBAQ; hypothetical
protein, JW0472, structural genomics, NPPSFA; 2.25A
{Escherichia coli}
Length = 113
Score = 27.8 bits (62), Expect = 3.9
Identities = 3/24 (12%), Positives = 12/24 (50%)
Query: 421 TINEIINGKEGVFPGLAPLISRYL 444
+++ +IN + +A +++
Sbjct: 40 SVSALINNNRKLTTEMAFRLAKVF 63
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding
protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A
3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A
3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A
3h3d_X
Length = 351
Score = 28.8 bits (65), Expect = 6.1
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 4/43 (9%)
Query: 80 GCCCLQVTFQACNISEAKTLYDQLTPLCPIM----NGTYFIFH 118
GC +Q + C + + ++L + G Y I H
Sbjct: 181 GCRVIQRILEHCTAEQTLPILEELHQHTEQLVQDQYGNYVIQH 223
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
0.319 0.136 0.413
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,658,727
Number of extensions: 579071
Number of successful extensions: 1122
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1111
Number of HSP's successfully gapped: 22
Length of query: 632
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 533
Effective length of database: 3,937,614
Effective search space: 2098748262
Effective search space used: 2098748262
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.0 bits)