RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2735
(475 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 = 51.8 bits (123), Expect = 4e-07
Identities = 41/330 (12%), Positives = 101/330 (30%), Gaps = 79/330 (23%)
Query: 46 WIEDRLDRVCSRKQLTKRLPITR---------WLPQYSLEDGIGDLVAGIT-VGLTVILQ 95
+IE R DR+ + Q+ + ++R L L L+ G+ G T +
Sbjct: 112 YIEQR-DRLYNDNQVFAKYNVSRLQPYLKLRQAL--LELRPAKNVLIDGVLGSGKTW-VA 167
Query: 96 AIAYSNIAGLEPQYGLYGSFVGAIIYIFVGTCKDVPMGPTAMVSLVTYQAVKGYGPQFAN 155
+ Y + I ++ + C P M+ + YQ + + +
Sbjct: 168 LDVCLS-------YKVQCKMDFKIFWLNLKNCNS-PETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 156 LLTL----------LSGIIQLMMGVFGLGIMLDFISGP-VASGFTSAVAIIITSSQIKDI 204
+ L +++ L ++L + + F + I++T+ +
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCL-LVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Query: 205 LGISGGGATFVKM-----------WVNIISNIENTSYPDL---LVGVICIAVSL---MLR 247
+S T + + +++ + DL ++ +S+ +R
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 248 E----------IAKIRVGHKNED--DSLSEPDL-------------TW-TQNTINKIFWL 281
+ + ++ E + L + + + W
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL-SLIWF 397
Query: 282 IGTSRNCVIVIASGLVGYYMSQDGPPPYKI 311
++ V+V+ + L Y + + P I
Sbjct: 398 -DVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Score = 39.8 bits (92), Expect = 0.002
Identities = 55/371 (14%), Positives = 106/371 (28%), Gaps = 88/371 (23%)
Query: 106 EPQYGLYGSFVGAIIYIFVGT--CKDVPMGPTAMVSLVTYQAVKGYGPQFANLLTLL--- 160
E QY Y + FV CKDV P +++S + + L L
Sbjct: 13 EHQYQ-YKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL 71
Query: 161 ----SGIIQLMMGVFGLGIMLDFISGPVASGFTSAVAIIITSSQIKDILGISGGGATFVK 216
++Q + L I F+ P+ + + + +D L F K
Sbjct: 72 LSKQEEMVQKFVEE-VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL--YNDNQVFAK 128
Query: 217 MWVNIISNIENTSYPDLLVGVICIAVSLM-LREIAKIRVGH------KN--EDDSLSEPD 267
V+ + + +L+ LR + + K D
Sbjct: 129 YNVSRLQPYLK------------LRQALLELRPAKNVLI-DGVLGSGKTWVALDVCLSYK 175
Query: 268 LTWTQNTINKIFWLIGTSRNC-----VIVIASGLVGYYMSQDGPPPYKIVGKLPPGLPSV 322
+ + KIFWL +NC V+ + L D P + +
Sbjct: 176 VQCKMD--FKIFWL--NLKNCNSPETVLEMLQKL---LYQID--PNWTSRSDHSSNIK-- 224
Query: 323 GFPLLTVQRGNTTYDFFDMVSIMGSGIFVTPLIAV--VENIAVCKAFAIIAICSLLWLTP 380
R ++ ++ S + L+ + V+N AF + C +L T
Sbjct: 225 -------LRIHSIQAELRR--LLKSKPYENCLLVLLNVQNAKAWNAFNL--SCKILLTTR 273
Query: 381 YFFYIPKASLAAVIISAV---IFMVEVRVVKPIYRSKKSDLIPGLVTFI----------A 427
+ + + +A I + + + L L+ ++
Sbjct: 274 F------KQVTDFLSAATTTHISLDHHS--MTLTPDEVKSL---LLKYLDCRPQDLPREV 322
Query: 428 CLILPLEIGFV 438
P + +
Sbjct: 323 LTTNPRRLSII 333
>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 = 4e-05
Identities = 71/475 (14%), Positives = 131/475 (27%), Gaps = 174/475 (36%)
Query: 11 VREIRESYNSFKVVEGPVLRGRKISVREKINSVGPWIEDRLDRVCSRKQLTKRLPITRWL 70
E+R+ Y ++ V+ G +++ E ++ + I LD + K T+ L I WL
Sbjct: 170 FEELRDLYQTYHVLVGDLIK----FSAETLSEL---IRTTLD---AEKVFTQGLNILEWL 219
Query: 71 --PQYSLEDGIGDLVAGITVGLTVI--LQAIAY---SNIAGLEPQYGLYGSFVGAIIYIF 123
P + + D + I + +I +Q Y + + G P L GA
Sbjct: 220 ENPSNTPDK---DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG-ELRSYLKGA----- 270
Query: 124 VGTCKDVPMGPTAMVSLVTYQAVKGYGPQFANLLTLLSGIIQLMMGVFGLGIMLDFISG- 182
G + + ++ + + + I ++ F G
Sbjct: 271 TGHSQGLVTA--VAIAE---------TDSWESFFVSVRKAITVL-----------FFIGV 308
Query: 183 ------PVASGFTSAVAIIITSSQIKDILGISGGGATFVKMWVNIISNIENTSYPDLLVG 236
P S + S ++D L + G + M +
Sbjct: 309 RCYEAYPNTS---------LPPSILEDSLENNEGVPSP--M-----------------LS 340
Query: 237 VICIAVSLMLREIAKIRVGHKNEDDSLSEPDLTWTQNTINKIFWLIGTSRNCVIVIASGL 296
+ + + + K H + I+ L+ ++N +V++
Sbjct: 341 ISNLTQEQVQDYVNKTN-SHLPAGKQVE----------IS----LVNGAKN--LVVS--- 380
Query: 297 VGYYMSQDGPPP--YKIVGKL-----PPGLPSVGFPLLTVQRGNTTYDFFDMVSIMGSGI 349
GPP Y + L P GL P +R + F V+
Sbjct: 381 --------GPPQSLYGLNLTLRKAKAPSGLDQSRIPFS--ERKLKFSNRFLPVASP---- 426
Query: 350 FVTPLIAVVENIAVCKAFAIIAICSLLWLTPYFFYIPKASLAAVIISAVIFMVEVRVVKP 409
F + L+ A +I L + P
Sbjct: 427 FHSHLLV--------PASDLI----NKDLVKNNVSFNAKDIQI----------------P 458
Query: 410 IY--------RSKKSDLIPGLVTFIACL--------------ILPLEIGFVVGVG 442
+Y R + +V I L IL G G+G
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLG 513
Score = 38.5 bits (89), Expect = 0.006
Identities = 26/141 (18%), Positives = 39/141 (27%), Gaps = 72/141 (51%)
Query: 5 PM-TVRG---------VREIRES-----------YNSFK--VVEGPV--LRGRKISVREK 39
PM ++ V + N K VV GP L G +++R+
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA 396
Query: 40 INSVGPWIEDRLDRVCSRKQLTKR--------LPIT------------------------ 67
G LD+ SR ++R LP+
Sbjct: 397 KAPSG------LDQ--SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV 448
Query: 68 RW------LPQYSLEDGIGDL 82
+ +P Y DG DL
Sbjct: 449 SFNAKDIQIPVYDTFDG-SDL 468
Score = 31.9 bits (72), Expect = 0.57
Identities = 51/283 (18%), Positives = 91/283 (32%), Gaps = 98/283 (34%)
Query: 9 RGVREIRESYNSFKVVEGPVLRGRKISVREKINSVGPWIEDRLDRVCSRKQLTKRLPITR 68
+G + IRE+Y++ E +D +++ K I
Sbjct: 1680 KG-KRIRENYSAMIF------------------------ETIVDGKLKTEKIFKE--INE 1712
Query: 69 WLPQYSLEDGIGDLVAGITVGLTVILQ-AIAYSNIA--------GLEPQYGLY-G-SFVG 117
Y+ G L T Q A+ A GL P + G S +G
Sbjct: 1713 HSTSYTFRSEKGLL------SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS-LG 1765
Query: 118 AIIYIFVGTCKDVPMGPTAMVSLVTYQAVKGYGPQFANLLTLLS--GI-IQLMMGVFGLG 174
Y A+ ++ +L+ ++ G+ +Q+ + LG
Sbjct: 1766 E--Y-------------AALA------SLADVMS-IESLVEVVFYRGMTMQVAVPRDELG 1803
Query: 175 I----MLDFISGPVASGFTSAVAIIITSSQIKDILGISGGGATFVKMWVNIISNIENTSY 230
M+ G VA+ F+ + ++ + +G V++ VN N+EN Y
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYV----VERVGKRTGW---LVEI-VNY--NVENQQY 1853
Query: 231 PDLLVGVI---CIAV---SLMLREIA--KIRVGHKNEDDSLSE 265
V A+ + +L I KI + + SL E
Sbjct: 1854 ------VAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
>2wl8_A Peroxisomal biogenesis factor 19; protein transport, biogenesis
disorder, zellweger syndrome, membrane, prenylation;
2.05A {Homo sapiens}
Length = 126
Score = 30.3 bits (68), Expect = 0.62
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 301 MSQDGPPPYKIVGKLPPGLP 320
+ G PP ++ G++PPGL
Sbjct: 101 LQDLGHPPKELAGEMPPGLN 120
>3qap_A Sensory rhodopsin-2; phototaxis, nphtrii, membrane, transport
protein; HET: RET BOG LFA L2P; 1.90A {Natronomonas
pharaonis} PDB: 1gue_A* 1gu8_A* 1h68_A* 3qdc_A* 2f93_A*
2f95_A* 2ksy_A* 1h2s_A* 1jgj_A*
Length = 239
Score = 27.7 bits (61), Expect = 7.1
Identities = 5/39 (12%), Positives = 14/39 (35%), Gaps = 2/39 (5%)
Query: 391 AAVIISAVIFMVEVRVVKPIYRSKKSDLIPGLVTFIACL 429
+++ + F R R + + ++ IA +
Sbjct: 13 IGMLVGTLAFAWAGRDAGSGER--RYYVTLVGISGIAAV 49
>1grj_A GREA protein; transcript elongation factor, transcript cleavage
factor, transcription regulation; 2.20A {Escherichia
coli} SCOP: a.2.1.1 d.26.1.2
Length = 158
Score = 27.1 bits (61), Expect = 7.5
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 1 MKLVPMTVRGVREIRESYNSFKVVEGP 27
M+ +PMT+RG ++RE + K V P
Sbjct: 1 MQAIPMTLRGAEKLREELDFLKSVRRP 27
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 0.142 0.422
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: 7,460,366
Number of extensions: 474594
Number of successful extensions: 1005
Number of sequences better than 10.0: 1
Number of HSP's gapped: 999
Number of HSP's successfully gapped: 29
Length of query: 475
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 378
Effective length of database: 3,993,456
Effective search space: 1509526368
Effective search space used: 1509526368
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 (26.5 bits)