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= 013966
(433 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OXW|A Chain A, The Crystal Structure Of Semet Patatin
pdb|1OXW|B Chain B, The Crystal Structure Of Semet Patatin
pdb|1OXW|C Chain C, The Crystal Structure Of Semet Patatin
Length = 373
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 75/334 (22%), Positives = 135/334 (40%), Gaps = 39/334 (11%)
Query: 76 LAHLESFIRRKSGNPDAHISDYFDVVXXXXXXXXXXXXXFTRGKDSNPMFSAEGALNFIV 135
L LE ++ N DA ++DYFDV+ T +++ P +A+ + F
Sbjct: 35 LEFLEGQLQEXDNNADARLADYFDVIGGTSTGGLLTAXISTPNENNRPFAAAKEIVPFYF 94
Query: 136 XXXXXXXXXXXXXXXXXCFKASRVEKLLRKTFGDLTLKDTLKPVLITCYDLSTCAPFLFS 195
+ + ++L++ G+ + L V+I+ +D+ T P +F+
Sbjct: 95 EHGPQIFNPSGQILGPK-YDGKYLXQVLQEKLGETRVHQALTEVVISSFDIKTNKPVIFT 153
Query: 196 RADALEMDGYDFKMRDVCLATSANPTVTGA---VEMRSVDQRTKIVGVDGCIA-MNNPTA 251
+++ D K D+ +T+A PT V S + VDG +A + +P
Sbjct: 154 KSNLANSPELDAKXYDISYSTAAAPTYFPPHYFVTNTSNGDEYEFNLVDGAVATVADPAL 213
Query: 252 SAITHVLNNKQEFPFCNGVEDL-----VVVSLGNG------------ESDSRTGSNHCLL 294
+I+ Q+ P + L +++SLG G E+ + T + L+
Sbjct: 214 LSISVATRLAQKDPAFASIRSLNYKKXLLLSLGTGTTSEFDKTYTAKEAATWTAVHWXLV 273
Query: 295 PSTFVRIAGDGASDM-VDQAVSMAFTQRGT-SNYARIQTNGIVSKKQGSVEKALKSNDKS 352
++ D AS D +S AF + +NY R+Q N + + E S
Sbjct: 274 ----IQKXTDAASSYXTDYYLSTAFQALDSKNNYLRVQENALTGT---TTEXDDASEANX 326
Query: 353 EILIAVEEMLSEK--------TYESVLFQGKKMV 378
E+L+ V E L +K TYE L + K++
Sbjct: 327 ELLVQVGENLLKKPVSEDNPETYEEALKRFAKLL 360
>pdb|2AEN|A Chain A, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|B Chain B, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|C Chain C, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|D Chain D, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|E Chain E, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|F Chain F, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|G Chain G, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
pdb|2AEN|H Chain H, Crystal Structure Of The Rotavirus Strain Ds-1 Vp8 Core
Length = 164
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 4/73 (5%)
Query: 334 IVSKKQGSVEKALKSNDKSEILIAVEEMLSEKTYESVLF-QGKKMVESTNLDK---LELF 389
I S G V ++ +ND +IAVE +S+ + +LF + K+ N DK E+F
Sbjct: 25 ISSNTNGVVYESTNNNDFWTAVIAVEPHVSQTNRQYILFGENKQFNVENNSDKWKFFEMF 84
Query: 390 AGELIKEQERRKT 402
G + R+T
Sbjct: 85 KGSSQGDFSNRRT 97
>pdb|4GKL|A Chain A, Crystal Structure Of A Noncanonic Maltogenic Alpha-amylase
Amyb From Thermotoga Neapolitana
pdb|4GKL|B Chain B, Crystal Structure Of A Noncanonic Maltogenic Alpha-amylase
Amyb From Thermotoga Neapolitana
Length = 422
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 51 QVNGKVRILSIDGAGSTDGILAAKSLAHLESFIRRKSGNPDAHISDYFDVV 101
++N V + + + D +L K H E F+R ++GNP + D+ DVV
Sbjct: 90 ELNMYVLMDMVLNHAAVDNVLVKK---HPEWFLRDENGNPTRKVPDWSDVV 137
>pdb|3E97|A Chain A, Crystal Structure Of Transcriptional Regulator Of CrpFNR
Family (Yp_604437.1) From Deinococcus Geothermalis Dsm
11300 At 1.86 A Resolution
Length = 231
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 23/50 (46%)
Query: 241 DGCIAMNNPTASAITHVLNNKQEFPFCNGVEDLVVVSLGNGESDSRTGSN 290
D IA T +A+THV N GV V+ LG + +RT S+
Sbjct: 139 DELIAFGQNTEAALTHVFANLYRQRLAAGVPQPEVLPLGTQDIXARTSSS 188
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
0.318 0.133 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,961,322
Number of Sequences: 62578
Number of extensions: 414076
Number of successful extensions: 863
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 857
Number of HSP's gapped (non-prelim): 7
length of query: 433
length of database: 14,973,337
effective HSP length: 102
effective length of query: 331
effective length of database: 8,590,381
effective search space: 2843416111
effective search space used: 2843416111
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)