RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15808
(275 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 = 63.9 bits (156), Expect = 1e-12
Identities = 31/183 (16%), Positives = 63/183 (34%), Gaps = 17/183 (9%)
Query: 28 PPGTLTLILIQTLLYIMNVLAQPWDSLGICISAHTILNQRDYKRLVLSALEHGDDMHLYY 87
P T +++ +++I + + + + ++ R AL H MH+ +
Sbjct: 4 GPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILF 63
Query: 88 NMVSLIVKGRELERMFGSVQFVVLVSFLIISTSVCYVMLSYVIYLMNHDVTELYQCAIGF 147
N++ G +E+ GS + +V+ + + S + G
Sbjct: 64 NLLWWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWF-------------GGL 110
Query: 148 SAV---LFSMKTIRTRQSPDVTHQLLNFSVPAVYAPWIELVIIHLMVPNASFKGHLSGIL 204
S V L +R + P L + WI L + + H++G+
Sbjct: 111 SGVVYALMGYVWLRGERDPQSGIYLQRGLIIFALI-WIVAGWFDLFGMSMANGAHIAGLA 169
Query: 205 VGL 207
VGL
Sbjct: 170 VGL 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 = 60.0 bits (146), Expect = 3e-11
Identities = 37/187 (19%), Positives = 65/187 (34%), Gaps = 25/187 (13%)
Query: 28 PPGTLTLILIQTLLYIMNVLAQPWDSLGICISAHTILNQRDYKRLVLSALEHGDDMHLYY 87
TL L + L+YI L D + + + R + L H ++H+ +
Sbjct: 9 GKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILF 68
Query: 88 NMVSLIVKGRELERMFGSVQFVVLVSFLIISTSVCYVMLSYVIYLMNHDVTELYQCAIGF 147
N+ + G +ER FGSV+ ++L T +S + G
Sbjct: 69 NLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVSGPAF-------------FGL 115
Query: 148 SAVLFS------MKTIRTRQSPDVTHQLLNFSVPAVYAPWIEL-VIIHLMVPNASFKGHL 200
S V+++ ++ D+ + I L I L H+
Sbjct: 116 SGVVYAVLGYVFIRDKLNHHLFDLPEGFFTMLL-----VGIALGFISPLFGVEMGNAAHI 170
Query: 201 SGILVGL 207
SG++VGL
Sbjct: 171 SGLIVGL 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 = 34.3 bits (78), Expect = 0.042
Identities = 25/172 (14%), Positives = 46/172 (26%), Gaps = 72/172 (41%)
Query: 88 NMVSLIV-----KGRELERMFGSVQFVVLVSFLIISTSVC-YVMLSYVIYLMNHDVTELY 141
N V+L + KG+ + + ++ F +V + + + + Y + L
Sbjct: 1668 NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 142 QCAIGFSAVLFSMKTIRTRQSPDVTHQLLNFSVPAVYAPWIELVIIHLM------VPNAS 195
T T Q PA+ +E + +A+
Sbjct: 1728 A-------------TQFT--------Q------PALTL--MEKAAFEDLKSKGLIPADAT 1758
Query: 196 FKGHLSGILVGLCYTETSLG------------------RLVERSGRSVSRVV 229
F GH SLG +V G ++ V
Sbjct: 1759 FAGH-------------SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV 1797
Score = 27.3 bits (60), Expect = 7.6
Identities = 5/25 (20%), Positives = 10/25 (40%), Gaps = 3/25 (12%)
Query: 240 DDCNGDDEDSDTS---ASFLDFTDN 261
+ DDE + + FL + +
Sbjct: 46 EGFAADDEPTTPAELVGKFLGYVSS 70
>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 = 32.9 bits (74), Expect = 0.12
Identities = 37/248 (14%), Positives = 74/248 (29%), Gaps = 75/248 (30%)
Query: 16 LYQVLSVGFH---LIPPGTLTLI----------LIQTLLYIMNVLAQPWDSLGICISAHT 62
++ LSV F IP L+LI ++ L+ +++ + I I +
Sbjct: 374 MFDRLSV-FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI--PS 430
Query: 63 ILNQRDY-----------KRLV-----LSALEHGD------DM----HLYYNMVSLIVKG 96
I + + +V + D D H+ +++ K
Sbjct: 431 I--YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHL-----KN 483
Query: 97 RELERMFGSVQFVVL-VSFL---IISTSVCYVMLSYVIYLMNHDVTELYQCAIGFSAVLF 152
E + V L FL I S + ++ + + + Y+ I
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ-QL-KFYKPYI------C 535
Query: 153 SMKTIRTRQSPDVTHQLLNFSVPAVYAPWIELVIIHLMVPNASFKGHLSGILVGLCYTET 212
R + L + + + +L+ I LM + I + E
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAED-------EAI-----FEEA 583
Query: 213 SLGRLVER 220
+ V+R
Sbjct: 584 H--KQVQR 589
Score = 32.5 bits (73), Expect = 0.16
Identities = 30/227 (13%), Positives = 69/227 (30%), Gaps = 40/227 (17%)
Query: 51 WDSLGICISAHTILN--QRDYKRLVLSALEHGDDM-HLYYNMVSLIVKGRELERMFGSVQ 107
W +L C S T+L Q+ ++ + D ++ + S+ EL R+ S
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ---AELRRLLKSKP 242
Query: 108 FVVLVSFLIISTSVCYVMLSYVIYLMNHDVTELYQCAI----GFSAVLFSMKTIRTRQSP 163
+ + L++ +V + N C I F V + T
Sbjct: 243 Y---ENCLLVLLNVQN---AKAWNAFNL------SCKILLTTRFKQVTDFLSAATTTH-I 289
Query: 164 DVTHQLLNFSVP---AVYAPWIELVIIHLMVPNASFKGHLSGI-LVGLCYTETSLGRLVE 219
+ H + + ++ +++ L P + + ++ S+ +
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDL--PREVLTTNPRRLSIIA-----ESIRDGLA 342
Query: 220 RSGRSVSRVVNTLTNVFKLDDDCNGDDEDSDTSASFLD---FTDNTK 263
+ LT + + + E ++ F F +
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVL---EPAEYRKMFDRLSVFPPSAH 386
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national
project on protein structural and functional analyses;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 102
Score = 26.0 bits (57), Expect = 5.7
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 58 ISAHTILNQRDYKRLVLSALEHGDDMHLYYNMVSLIVKGREL 99
IS H ILN+ + + ++ E YY +V G+ +
Sbjct: 43 ISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPV 84
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
0.326 0.139 0.408
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,024,559
Number of extensions: 230620
Number of successful extensions: 397
Number of sequences better than 10.0: 1
Number of HSP's gapped: 395
Number of HSP's successfully gapped: 7
Length of query: 275
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 183
Effective length of database: 4,133,061
Effective search space: 756350163
Effective search space used: 756350163
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 (25.3 bits)