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= 040914
(139 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TTS|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|C Chain C, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|D Chain D, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|E Chain E, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|F Chain F, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTY|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|C Chain C, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|D Chain D, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|E Chain E, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|F Chain F, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
Length = 675
Score = 30.4 bits (67), Expect = 0.37, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 86 RTIDIITRNCWPTMLTSLGFTAEERNLLRG 115
+ +D+++ + +P+M T FTA NL+RG
Sbjct: 267 KEMDVVSWDNYPSMDTPFSFTAMAHNLMRG 296
>pdb|4F2G|A Chain A, The Crystal Structure Of Ornithine Carbamoyltransferase
From Burkholderia Thailandensis E264
Length = 309
Score = 28.9 bits (63), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 83 DCCRTIDIITRNCWPTMLTSLGFTAEERNLLRGYCD 118
+ C+ D++T + W TS+GF AE R + D
Sbjct: 212 EACKGADLVTTDVW----TSMGFEAENEARKRAFAD 243
>pdb|3UG9|A Chain A, Crystal Structure Of The Closed State Of Channelrhodopsin
Length = 333
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 88 IDIITRNCWPTMLTSLGFTAEERNLLRGYCDASSAPSPGGPEVTYEPQTDN 138
ID++++NCW + L E L+ G ++ + GG E+ E ++
Sbjct: 268 IDLMSKNCWGLLGHYLRVLIHEHILIHGDIRKTTKLNIGGTEIEVETLVED 318
>pdb|1YVP|A Chain A, Ro Autoantigen Complexed With Rnas
pdb|1YVP|B Chain B, Ro Autoantigen Complexed With Rnas
pdb|1YVR|A Chain A, Ro Autoantigen
pdb|2I91|A Chain A, 60kda Ro Autoantigen In Complex With A Fragment Of
Misfolded Rna
pdb|2I91|B Chain B, 60kda Ro Autoantigen In Complex With A Fragment Of
Misfolded Rna
Length = 538
Score = 26.6 bits (57), Expect = 4.3, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 87 TIDIITRNCWPTMLTSLGFTAEERNLLRGYCDASSAPSPGGPEVT 131
TI + ++ W ++L + TA RNL G A S +P EV+
Sbjct: 260 TIHLKSKEIWKSLLQDMPLTALLRNL--GKMTADSVLAPASSEVS 302
>pdb|4FAO|E Chain E, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|F Chain F, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|K Chain K, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|L Chain L, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|Q Chain Q, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|R Chain R, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|W Chain W, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|X Chain X, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|EE Chain e, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|FF Chain f, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|KK Chain k, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
pdb|4FAO|LL Chain l, Specificity And Structure Of A High Affinity Activin-Like
1 (Alk1) Signaling Complex
Length = 124
Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 123 PSPGGPEVTYEP 134
P GGPEVTYEP
Sbjct: 101 PEAGGPEVTYEP 112
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
0.324 0.136 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,318,444
Number of Sequences: 62578
Number of extensions: 101838
Number of successful extensions: 243
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 240
Number of HSP's gapped (non-prelim): 5
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)