RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6649
(242 letters)
>2xov_A Rhomboid protease GLPG; membrane protein, hydrolase, intramembrane
protease; HET: BNG; 1.65A {Escherichia coli} PDB:
2ic8_A* 2nrf_A 2xtu_A* 2irv_A* 3b45_A* 2o7l_A* 2xow_A*
3txt_A* 2xtv_A* 3b44_A*
Length = 181
Score = 64.6 bits (158), Expect = 3e-13
Identities = 28/182 (15%), Positives = 62/182 (34%), Gaps = 16/182 (8%)
Query: 27 PPATLGLVFLQSMVYL-NIFRKPWSTLDVCISADAVIQQRDYKRLILSAFEHGDDMHLYY 85
P T ++ +V++ + + ++ R A H MH+ +
Sbjct: 4 GPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILF 63
Query: 86 NMVSLILKGRQLEKIYGWGKFLSLVIFLTVFTSLYYILLAYIVFYITNDTSELSHCAIGF 145
N++ G +EK G GK + + + + + + F G
Sbjct: 64 NLLWWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWF-------------GGL 110
Query: 146 SAVLFAMKTILTRLQPDAYQQILNINVKAIYAPWFELIIIY--LLVPNASFKGHLSGILV 203
S V++A+ + Q + + I ++ + L + + H++G+ V
Sbjct: 111 SGVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSMANGAHIAGLAV 170
Query: 204 GL 205
GL
Sbjct: 171 GL 172
>2nr9_A Protein GLPG homolog; intramembrane peptidase, rhomboid protease,
membrane protein; HET: PA6 PQE; 2.20A {Haemophilus
influenzae} SCOP: f.51.1.1 PDB: 3odj_A
Length = 196
Score = 59.3 bits (144), Expect = 4e-11
Identities = 33/183 (18%), Positives = 60/183 (32%), Gaps = 18/183 (9%)
Query: 27 PPATLGLVFLQSMVY-LNIFRKPWSTLDVCISADAVIQQRDYKRLILSAFEHGDDMHLYY 85
TL L L ++Y + + Q + R I H ++H+ +
Sbjct: 9 GKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILF 68
Query: 86 NMVSLILKGRQLEKIYGWGKFLSLVIFLTVFTSLYYILLAYIVFYITNDTSELSHCAIGF 145
N+ + G +E+ +G K L L + + T ++ F G
Sbjct: 69 NLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVSGPAF-------------FGL 115
Query: 146 SAVLFAMK---TILTRLQPDAYQQILNINVKAIYAPWFELIIIYLLVPNASFKGHLSGIL 202
S V++A+ I +L + + I L H+SG++
Sbjct: 116 SGVVYAVLGYVFIRDKLNHHLFDLPEGFFTMLLVGIALGFISP-LFGVEMGNAAHISGLI 174
Query: 203 VGL 205
VGL
Sbjct: 175 VGL 177
>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 = 32.3 bits (73), Expect = 0.16
Identities = 43/269 (15%), Positives = 74/269 (27%), Gaps = 113/269 (42%)
Query: 2 TRPRRYELGLIL--------LLV-HILHLGA--------DTIPPAT------------LG 32
TRP L L LLV A +P T
Sbjct: 6 TRP------LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 33 LV--FLQSMVYLNIFRKPWSTLDVCISADAVIQQRDYKRLILSAFE----HGDDMHLYYN 86
LV FL Y++ +P D V+ L L+ FE G+D+H
Sbjct: 60 LVGKFLG---YVSSLVEP----SKVGQFDQVL------NLCLTEFENCYLEGNDIH---- 102
Query: 87 MVSLILKGRQLEKIYGWGKFLSLVIFLTVFTSLYYILLAYIVFYITNDTSELSHCAIGFS 146
+L +L + T ++ Y +
Sbjct: 103 --ALAA---KLLQEND-----------TTLVKTKELIKNY------------------IT 128
Query: 147 AVLFAMKTILTRLQPDAYQQILNINVKAIYA---------PWF-ELIIIY--------LL 188
A + A + + ++ + N + + A +F EL +Y L
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQ-LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL 187
Query: 189 VPNASFKGHLSGILVGLTYTDTPIGWGLD 217
+ ++ LS ++ + GL+
Sbjct: 188 IKFSA--ETLSELIRTTLDAEKVFTQGLN 214
Score = 31.6 bits (71), Expect = 0.24
Identities = 34/196 (17%), Positives = 62/196 (31%), Gaps = 75/196 (38%)
Query: 37 QS--M---VYLN--IFRKPWSTLDVCISADAVIQQRDYKRLILSAFEHGDDMHLYYNMVS 89
Q M +Y + W+ AD + Y IL + N V+
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNR------ADNHFKDT-YGFSILDIVIN--------NPVN 1671
Query: 90 LIL-----KGRQLEKIYGWGKFLSL----VIFLTVFTSLYYILLAYIVFYITNDTSELSH 140
L + KG+++ + Y F ++ + +F + +Y F ++ LS
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT-FR--SEKGLLS- 1727
Query: 141 CAIGFSAVLFAMKTILTRLQPDAYQQILNINVKAI----YAPWFELIIIYLLVPNASFKG 196
T T QP A+ A + +L L+ +A+F G
Sbjct: 1728 ------------ATQFT--QP------------ALTLMEKAAFEDLKSKGLIPADATFAG 1761
Query: 197 H----------LSGIL 202
H L+ ++
Sbjct: 1762 HSLGEYAALASLADVM 1777
>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 = 31.4 bits (70), Expect = 0.33
Identities = 17/134 (12%), Positives = 41/134 (30%), Gaps = 14/134 (10%)
Query: 40 VYLNIFRKPWSTLDVCISADAVIQQRDYKRLILSAFEHGDDMHLYYNMVSLILKGRQ--- 96
V+ + F + DV +++ + + +I+S +L+ K +
Sbjct: 24 VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK---DAVSGTLRLFWTLLSKQEEMVQ 80
Query: 97 ------LEKIYGWGKFLSLVIFLTVFTSLYYILLAYIVFYITNDTSELSHCAIGFSAVLF 150
L Y + +S + S+ + + ND + +
Sbjct: 81 KFVEEVLRINYKF--LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL 138
Query: 151 AMKTILTRLQPDAY 164
++ L L+P
Sbjct: 139 KLRQALLELRPAKN 152
Score = 30.6 bits (68), Expect = 0.54
Identities = 33/220 (15%), Positives = 71/220 (32%), Gaps = 41/220 (18%)
Query: 36 LQSMVYLNIFRKPWSTLDVCISADAVI--QQRDYKRLILSAFEHGDDM-HLYYNMVSLIL 92
+Q + IF W L C S + V+ Q+ ++ + D ++ + S+
Sbjct: 176 VQCKMDFKIF---WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 93 KGRQL--EKIYGWGKFLSLVIFLTVFTSLYYILLAY-----IVFYITNDTSELSHCAIGF 145
+ R+L K Y L++ L V + A+ I+ T ++
Sbjct: 233 ELRRLLKSKPYE----NCLLVLLNVQNA--KAWNAFNLSCKILL-TTRFKQ-VTDFLSAA 284
Query: 146 SAVLFAMKTILTRLQPDAYQQILNINVKAIYAPWFELIIIYLLVPNASFKGHLSGI-LVG 204
+ ++ L PD VK++ + + L P + + ++
Sbjct: 285 TTTHISLDHHSMTLTPD--------EVKSLLLKYLDCRPQDL--PREVLTTNPRRLSIIA 334
Query: 205 LTYTDTPIGWG---------LDYVVDKCQEMINGEEQEDM 235
+ D W L +++ ++ E M
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374
Score = 27.1 bits (59), Expect = 7.3
Identities = 32/205 (15%), Positives = 59/205 (28%), Gaps = 46/205 (22%)
Query: 26 IPPATLGLVFLQSMVYLNIFRKPWSTLDVCISADAVIQQRDYKRLILSAFEHGDDMHLYY 85
IP L L++ I ++ V +Q + + ++L
Sbjct: 387 IPTILLSLIWFDV-----IKSDVMVVVNKLHKYSLVEKQPKESTISI----P--SIYLEL 435
Query: 86 -----NMVSL---ILKGRQLEKIYGWGKFLSLVIFLTVFTSLYYILLAYIVFYITNDTSE 137
N +L I+ + K + + + Y ++I ++ N E
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-------QYF-YSHIGHHLKN--IE 485
Query: 138 LSHCAIGFSAVLF-----AMKTILTRLQPDAYQQILN-INVKAIYA-------PWFELII 184
F V K +A ILN + Y P +E ++
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Query: 185 IYLLVPNASFKGHLSGILVGLTYTD 209
+L F + L+ YTD
Sbjct: 546 NAIL----DFLPKIEENLICSKYTD 566
>3vla_A EDGP; extracellular, inhibitor, plant protein; HET: NAG; 0.95A
{Daucus carota} PDB: 3vlb_A
Length = 413
Score = 29.1 bits (64), Expect = 1.3
Identities = 16/100 (16%), Positives = 32/100 (32%), Gaps = 3/100 (3%)
Query: 73 SAFEHGDDMHLYYNMVSLILKGRQLEKIYGWGKFLSLVIFLTVFTSLYYILLAYIVF--- 129
S G+D + + + + K + S + Y+I + I
Sbjct: 190 SVIIFGNDPYTFLPNIIVSDKTLTYTPLLTNPVSTSATSTQGEPSVEYFIGVKSIKINSK 249
Query: 130 YITNDTSELSHCAIGFSAVLFAMKTILTRLQPDAYQQILN 169
+ +TS LS + G + T L+ Y+ +
Sbjct: 250 IVALNTSLLSISSAGLGGTKISTINPYTVLETSIYKAVTE 289
>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 = 27.2 bits (59), Expect = 3.1
Identities = 5/16 (31%), Positives = 9/16 (56%), Gaps = 3/16 (18%)
Query: 165 QQI--LNINVKAIYAP 178
Q + L ++K +YA
Sbjct: 20 QALKKLQASLK-LYAD 34
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 0.143 0.435
Gapped
Lambda K H
0.267 0.0463 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,717,107
Number of extensions: 213370
Number of successful extensions: 418
Number of sequences better than 10.0: 1
Number of HSP's gapped: 413
Number of HSP's successfully gapped: 12
Length of query: 242
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,160,982
Effective search space: 628308282
Effective search space used: 628308282
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: 56 (26.0 bits)