RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17558
(317 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 = 83.9 bits (208), Expect = 1e-19
Identities = 31/123 (25%), Positives = 52/123 (42%), Gaps = 6/123 (4%)
Query: 177 PPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYNPFHRAEVWRFMTYMLVHVGG 236
PV + + + F+ I+GD + ++P + E WR+ T+ L+H
Sbjct: 4 GPVTWVMM-IACVVVFIA-MQILGDQEVMLWLAWP---FDPTLKFEFWRYFTHALMHFSL 58
Query: 237 FHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHVFLAGASGGVYAL 296
H++ NLL LG +E ++++I L+ L F G SG VYAL
Sbjct: 59 MHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWF-GGLSGVVYAL 117
Query: 297 IAA 299
+
Sbjct: 118 MGY 120
Score = 33.8 bits (78), Expect = 0.032
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 59 PPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYNPFHRAEVWRFMTYMLVHVGI 118
PV + + + F+ I+GD + ++P + E WR+ T+ L+H +
Sbjct: 4 GPVTWVMM-IACVVVFIA-MQILGDQEVMLWLAWP---FDPTLKFEFWRYFTHALMHFSL 58
Query: 119 W 119
Sbjct: 59 M 59
>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 = 83.5 bits (207), Expect = 2e-19
Identities = 28/135 (20%), Positives = 54/135 (40%), Gaps = 6/135 (4%)
Query: 177 PPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYNPFHRAEVWRFMTYMLVHVGG 236
+ +I A+ + ++ A +G + M EVWR++++ LVH+
Sbjct: 9 GKITLILT-ALCVLIYI--AQQLGFEDDIMYLMHYPAYEEQDS--EVWRYISHTLVHLSN 63
Query: 237 FHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHVFLAGASGGVYAL 296
H++ NL + G +E ++L++Y+V + F G SG VYA+
Sbjct: 64 LHILFNLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVSGPAF-FGLSGVVYAV 122
Query: 297 IAAHVATIIMVRSLL 311
+ + L
Sbjct: 123 LGYVFIRDKLNHHLF 137
Score = 32.7 bits (75), Expect = 0.10
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 5/61 (8%)
Query: 59 PPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYNPFHRAEVWRFMTYMLVHVGI 118
+ +I A+ + ++ A +G + M EVWR++++ LVH+
Sbjct: 9 GKITLILT-ALCVLIYI--AQQLGFEDDIMYLMHYPAYEEQDS--EVWRYISHTLVHLSN 63
Query: 119 W 119
Sbjct: 64 L 64
>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 = 41.6 bits (97), Expect = 3e-04
Identities = 42/279 (15%), Positives = 80/279 (28%), Gaps = 87/279 (31%)
Query: 64 IFISAVEIGFFLYDAMIVG----DTYSLRGPMAKTLIYNPFHRAEVWRFMTYMLVHVGIW 119
A+ + FF +G + Y L + + V + ML +
Sbjct: 295 SVRKAITVLFF------IGVRCYEAYPNTSLPPSILEDSLENNEGV---PSPMLSISNLT 345
Query: 120 ENAAQDEADVVVIRKPKWNRL-----NSYVRKTVV---PR--HRIQPQVRHKVEPDGIYE 169
+ QD + P ++ N + VV P+ + + +R P G+ +
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGA-KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 170 DEYTCIP-----PPVIMIF--ISAVEIGF---FLYDA--MIVGD----TYSLRGPMAKTL 213
IP F +++ F L A +I D S +
Sbjct: 405 SR---IPFSERKLKFSNRFLPVASP---FHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 214 IYNPF-------HRAEVWRFMTYMLV---------------HV-----GGFHLVVNLLVQ 246
+Y+ F + + ++ H+ GG + L +
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHR 518
Query: 247 ILLGIPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHVF 285
G RV ++AG+L + D + F
Sbjct: 519 NKDG-------TGVRV-------IVAGTLDINPDDDYGF 543
Score = 33.5 bits (76), Expect = 0.12
Identities = 19/126 (15%), Positives = 36/126 (28%), Gaps = 34/126 (26%)
Query: 21 RLNSYVRKTVVPRHRIQPQVRHKVEPDGIYEDEYTCIPPPVIMIF--ISAVEIGF---FL 75
LN +RK P Q ++ F +++ F L
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSER------------KLKFSNRFLPVASP---FHSHLL 432
Query: 76 YDA--MIVGD----TYSLRGPMAKTLIYNPF-------HRAEVWRFMTYMLVHVGI-WEN 121
A +I D S + +Y+ F + + ++ + + WE
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Query: 122 AAQDEA 127
Q +A
Sbjct: 493 TTQFKA 498
Score = 28.5 bits (63), Expect = 3.8
Identities = 29/149 (19%), Positives = 45/149 (30%), Gaps = 59/149 (39%)
Query: 193 LYDAMIVGDTY-----SLRGPMAKTLIYNPFHRAEVWRFMTYMLVHVGGFHLV------- 240
LY TY L A+TL + + T G +++
Sbjct: 176 LYQ------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ------GLNILEWLENPS 223
Query: 241 ----VNLLVQILLGIPL----EMVHRWWRVLIIYLV-----GVLAGSLATSITDPHVFLA 287
+ L+ I + PL ++ H Y+V G G L + L
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAH--------YVVTAKLLGFTPGELRSY-------LK 268
Query: 288 GASGGVYALIAAHVATIIMVRSLLKQQWD 316
GA+G L+ A I S W+
Sbjct: 269 GATGHSQGLVTA--VAIAETDS-----WE 290
>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 = 34.8 bits (79), Expect = 0.043
Identities = 34/227 (14%), Positives = 70/227 (30%), Gaps = 70/227 (30%)
Query: 7 DEADVVVIRKPKWNRLNSYVRKTVVPRHRIQPQVR-H------KVEPDGIYE------DE 53
++DV+V+ +N + ++V + + + KV+ + Y D
Sbjct: 400 IKSDVMVV-------VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH 452
Query: 54 Y---------TCIPPPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYNPFHRAE 104
Y IPP + F S IG L + R +++ F
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYS--HIGHHLKNIEHPERMTLFR------MVFLDF---- 500
Query: 105 VWRFMTYMLVHVGIWENAAQDEADVVVIRKPKWNRLNSYVRKTVVPRHRIQPQVR----- 159
RF+ + H NA+ + + +L Y + + ++
Sbjct: 501 --RFLEQKIRHDSTAWNASGSILNTL-------QQLKFY-KPYICDNDPKYERLVNAILD 550
Query: 160 --HKVEPDGIYEDEYTCIPPPVIMIFISAVEIGFFLYDAMIVGDTYS 204
K+E + + +YT + + I D I + +
Sbjct: 551 FLPKIEEN-LICSKYTDL-----------LRIALMAEDEAIFEEAHK 585
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
0.328 0.143 0.454
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: 5,298,429
Number of extensions: 334397
Number of successful extensions: 864
Number of sequences better than 10.0: 1
Number of HSP's gapped: 856
Number of HSP's successfully gapped: 14
Length of query: 317
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 223
Effective length of database: 4,077,219
Effective search space: 909219837
Effective search space used: 909219837
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 (26.0 bits)