BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 041923
(529 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 102 bits (254), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 65/165 (39%), Positives = 90/165 (54%), Gaps = 4/165 (2%)
Query: 24 NKYDVFLSFSRAETRDSFTSHLRSALCQKSIETFIDD-QLIRGDDISESLPDTXXXXXXX 82
KYDVFLSF +TR +F S L L ++SI TF DD +L G S L
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 83 XXXFSERYASSGRCLNELLKILECKHNYGQIVIPVFYRVDPLHVRKQIGIFGDSFLELEE 142
SE YA+S CL+EL+ I++ + V+P+FY V+P HVR Q G+ + F +
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS 126
Query: 143 R-FPEKMERWRSALTEAANLPGFDSHVFRNESELIKKVVNDILEK 186
R PEK+ +WR ALT A L G S ++S+L+ K+ N+I K
Sbjct: 127 REDPEKVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNK 169
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 56/171 (32%), Positives = 92/171 (53%), Gaps = 7/171 (4%)
Query: 25 KYDVFLSFSRAETRDSFTSHLRSALCQKSIETF-IDDQLIRGDDISESLPDTXXXXXXXX 83
+Y+VFLSF +TR+ FT L +L + I TF DD+L++G +I +L
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 84 XXFSERYASSGRCLNELLKILECK-HNYGQIVIPVFYRVDPLHVRKQIGIFGDSFLELEE 142
S YA S CL EL +I+ + + +I++P+FY VDP VR Q G + +F +
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 143 RFP-EKMERWRSALTEAANLPGFDSHVFRNESE--LIKKVVNDILEKLPKE 190
+F + ++ W+ AL + +L G+ H+ +N+ + + KV DI + KE
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGW--HIGKNDKQGAIADKVSADIWSHISKE 203
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 55/233 (23%), Positives = 98/233 (42%), Gaps = 44/233 (18%)
Query: 231 VGIWGMGGIGKTTIARAVFNKISRNFEGSCFLQNVRKES---QSPGGLARLQQKLLSEVL 287
V I+GM G GK+ +A S EG CF V S Q GL Q L +
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 207
Query: 288 RDENVIPDIEFNFTRLSRR----------KALIVLDDVTCFRQIKFLIRSLDWFMPESRI 337
++E+ + N R ++L++LDDV +++++ D + +I
Sbjct: 208 QEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV----WDPWVLKAFD---NQCQI 260
Query: 338 IITTRDQKV------------LKNGGVKEKDIYEMKA---LECENLPNEVGYQELSEKII 382
++TTRD+ V +++G +EK + + ++ E+LP E + II
Sbjct: 261 LLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE------AHSII 314
Query: 383 NYAQGVPLALEILGCFLYGKGKEVWENAINELKRILNMEIQKVLKISFDGLDD 435
+G PL + ++G L W + +L+ I+K ++ LD+
Sbjct: 315 KECKGSPLVVSLIGALLRDFPNR-WAYYLRQLQNKQFKRIRKSSSYDYEALDE 366
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.6 bits (83), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 54/233 (23%), Positives = 97/233 (41%), Gaps = 44/233 (18%)
Query: 231 VGIWGMGGIGKTTIARAVFNKISRNFEGSCFLQNVRKES---QSPGGLARLQQKLLSEVL 287
V I+GM G GK+ +A S EG CF V S Q GL Q L +
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 214
Query: 288 RDENVIPDIEFNFTRLSRR----------KALIVLDDVTCFRQIKFLIRSLDWFMPESRI 337
++E+ + N R ++L++LDDV +++++ D + +I
Sbjct: 215 QEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV----WDPWVLKAFD---NQCQI 267
Query: 338 IITTRDQKV------------LKNGGVKEKDIYEMKA---LECENLPNEVGYQELSEKII 382
++TT D+ V +++G +EK + + ++ E+LP E + II
Sbjct: 268 LLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE------AHSII 321
Query: 383 NYAQGVPLALEILGCFLYGKGKEVWENAINELKRILNMEIQKVLKISFDGLDD 435
+G PL + ++G L W + +L+ I+K ++ LD+
Sbjct: 322 KECKGSPLVVSLIGALLRDFPNR-WAYYLRQLQNKQFKRIRKSSSYDYEALDE 373
>pdb|4G1U|C Chain C, X-Ray Structure Of The Bacterial Heme Transporter Hmuuv
From Yersinia Pestis
pdb|4G1U|D Chain D, X-Ray Structure Of The Bacterial Heme Transporter Hmuuv
From Yersinia Pestis
Length = 266
Score = 32.0 bits (71), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 202 VLSCNNKNHLVGVESKVGEIESLLAAAPLVGIWGMGGIGKTTIARAVFNKISRNFEGSCF 261
+L ++ ++ V ++ + ++ +A+ +V I G G GK+T+ R + +S + G C
Sbjct: 11 LLEASHLHYHVQQQALINDVSLHIASGEMVAIIGPNGAGKSTLLRLLTGYLSPS-HGECH 69
Query: 262 LQNVRKESQSPGGLAR 277
L S P LAR
Sbjct: 70 LLGQNLNSWQPKALAR 85
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 59/126 (46%), Gaps = 33/126 (26%)
Query: 215 ESKVGEIESLLAAAPL--------VGIWGMGGIGKTTIARAVFNKISRNFEGS---CFLQ 263
E ++ +I S+LA PL + I+G+ G GKT + + V +K+ + F G ++
Sbjct: 26 EDQIRKIASILA--PLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN 83
Query: 264 NVRKESQSPGGLARLQQKLLSEVLRDENV-IPDIEFNFTRLSRR----------KALIVL 312
++ +P ++L+++L +V +P + L RR + +IVL
Sbjct: 84 T--RQIDTP-------YRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVL 134
Query: 313 DDVTCF 318
D++ F
Sbjct: 135 DEIDAF 140
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 10/46 (21%)
Query: 215 ESKVGEIESLLAAAPLVGIWGMGGIGKTTIARAVFNKISRNFEGSC 260
E+K GEI +GI G GIGKTT AR + +I+ + EGS
Sbjct: 290 EAKEGEI---------IGILGPNGIGKTTFARILVGEITAD-EGSV 325
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 228 APLVGIWGMGGIGKTTIARAVFNKISRNFEGSCFLQNVRKESQSPG 273
P++ + G G+GKT++A+++ + R F L VR ES+ G
Sbjct: 108 GPILCLAGPPGVGKTSLAKSIAKSLGRKFV-RISLGGVRDESEIRG 152
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.138 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,677,933
Number of Sequences: 62578
Number of extensions: 600224
Number of successful extensions: 1642
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1626
Number of HSP's gapped (non-prelim): 35
length of query: 529
length of database: 14,973,337
effective HSP length: 103
effective length of query: 426
effective length of database: 8,527,803
effective search space: 3632844078
effective search space used: 3632844078
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)