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= 041147
(222 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SUA|D Chain D, Crystal Structure Of The Intracellular Domain Of Plexin-B1
In Complex With Rac1
pdb|3SUA|E Chain E, Crystal Structure Of The Intracellular Domain Of Plexin-B1
In Complex With Rac1
pdb|3SUA|F Chain F, Crystal Structure Of The Intracellular Domain Of Plexin-B1
In Complex With Rac1
Length = 633
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 160 PGFGRSPLVRQLRITDSPFPLKDEGDGQVDKA--AEDFIKKFYKDLMLQKSMAAFESPY 216
PG SPL R L + +S P ++G GQ+ ++ F+ KF L Q++ +A + Y
Sbjct: 76 PGHRESPLHRDLGVPESRRPTVEQGLGQLSNLLNSKLFLTKFIHTLETQRTFSARDRAY 134
>pdb|3SU8|X Chain X, Crystal Structure Of A Truncated Intracellular Domain Of
Plexin-B1 In Complex With Rac1
Length = 611
Score = 30.4 bits (67), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 160 PGFGRSPLVRQLRITDSPFPLKDEGDGQVDKA--AEDFIKKFYKDLMLQKSMAAFESPYH 217
PG SPL R L + +S P ++G GQ+ ++ F+ KF L Q++ +A + Y
Sbjct: 54 PGHRESPLHRDLGVPESRRPTVEQGLGQLSNLLNSKLFLTKFIHTLETQRTFSARDRAYV 113
Query: 218 HS 219
S
Sbjct: 114 AS 115
>pdb|3HM6|X Chain X, Crystal Structure Of The Cytoplasmic Domain Of Human
Plexin B1
Length = 644
Score = 30.0 bits (66), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 160 PGFGRSPLVRQLRITDSPFPLKDEGDGQVDKA--AEDFIKKFYKDLMLQKSMAAFESPYH 217
PG SPL R L + +S P ++G GQ+ ++ F+ KF L Q++ +A + Y
Sbjct: 87 PGHRESPLHRDLGVPESRRPTVEQGLGQLSNLLNSKLFLTKFIHTLETQRTFSARDRAYV 146
Query: 218 HS 219
S
Sbjct: 147 AS 148
>pdb|3SBU|A Chain A, Crystal Structure Of A Hypothetical Ntf2-Like Protein
(Bf2862) From Bacteroides Fragilis Nctc 9343 At 2.15 A
Resolution
pdb|3SBU|B Chain B, Crystal Structure Of A Hypothetical Ntf2-Like Protein
(Bf2862) From Bacteroides Fragilis Nctc 9343 At 2.15 A
Resolution
Length = 261
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 174 TDSPFPLKDEGDGQVDKAAEDFIKKFYKDLMLQKSMAAFESPYHH 218
+D P P+ + D++ +DFI F D LQ+ F PY++
Sbjct: 29 SDEPXPI------EADESFDDFIYNFASDDALQRQRVVFPLPYYN 67
>pdb|4FE3|A Chain A, Structure Of Murine Cytosolic 5'-Nucleotidase Iii
Complexed With Uridinine Monophosphate
Length = 297
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 40/96 (41%), Gaps = 3/96 (3%)
Query: 4 EPTKPPVVAKKLWKIVRIVFFMIKAGISKSKIMVDFHLMLKRGNKLAGKAIGNLIFHNHL 63
E K V K ++ I+ +IK G +K +I+ DF++ L R + GK HN +
Sbjct: 15 EFQKSSVRIKNPTRVEEIICGLIKGGAAKLQIITDFNMTLSRFS-YNGKRCPTC--HNII 71
Query: 64 SSLSCRSNDAHLSFISPKEYEFSCSNSPAFNFSYPF 99
+ +++ + KE ++ P F
Sbjct: 72 DNCKLVTDECRRKLLQLKEQYYAIEVDPVLTVEEKF 107
>pdb|3UQY|L Chain L, H2-Reduced Structure Of E. Coli Hydrogenase-1
pdb|3UQY|M Chain M, H2-Reduced Structure Of E. Coli Hydrogenase-1
pdb|3USC|L Chain L, Crystal Structure Of E. Coli Hydrogenase-1 In A
Ferricyanide-Oxidized Form
pdb|3USC|M Chain M, Crystal Structure Of E. Coli Hydrogenase-1 In A
Ferricyanide-Oxidized Form
pdb|3USE|L Chain L, Crystal Structure Of E. Coli Hydrogenase-1 In Its
As-Isolated Form
pdb|3USE|M Chain M, Crystal Structure Of E. Coli Hydrogenase-1 In Its
As-Isolated Form
pdb|4GD3|L Chain L, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
pdb|4GD3|M Chain M, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
pdb|4GD3|J Chain J, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
pdb|4GD3|K Chain K, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
Length = 582
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 114 LQKAAKAYHYDDVATVQAVQRVLEMLN 140
L + AYH D ATV++V R++ LN
Sbjct: 413 LARTLIAYHKGDAATVESVDRMMSALN 439
>pdb|4FZH|A Chain A, Structure Of The Ulster Strain Newcastle Disease Virus
Hemagglutinin- Neuraminidase Reveals Auto-Inhibitory
Interactions Associated With Low Virulence
pdb|4FZH|B Chain B, Structure Of The Ulster Strain Newcastle Disease Virus
Hemagglutinin- Neuraminidase Reveals Auto-Inhibitory
Interactions Associated With Low Virulence
pdb|4FZH|C Chain C, Structure Of The Ulster Strain Newcastle Disease Virus
Hemagglutinin- Neuraminidase Reveals Auto-Inhibitory
Interactions Associated With Low Virulence
pdb|4FZH|D Chain D, Structure Of The Ulster Strain Newcastle Disease Virus
Hemagglutinin- Neuraminidase Reveals Auto-Inhibitory
Interactions Associated With Low Virulence
Length = 536
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 33/89 (37%), Gaps = 8/89 (8%)
Query: 74 HLSFISPKEYEFSCSNSPAFNFSYPFTNYGHN-----KRKHHHYHLQKAAKAYHYDDVAT 128
HL+FI C+ P+F+ S Y HN R H H H A AT
Sbjct: 79 HLNFIPAPTTGSGCTRIPSFDMSATHYCYTHNVILSGCRDHSHSHQYLALGVLRTS--AT 136
Query: 129 VQAVQRVLEMLNTSDN-NHAVASAAPSPL 156
+ L +N D N S + +PL
Sbjct: 137 GRVFFSTLHSINLDDTQNRKSCSVSATPL 165
>pdb|3FBG|A Chain A, Crystal Structure Of A Putative Arginate Lyase From
Staphylococcus Haemolyticus
pdb|3FBG|B Chain B, Crystal Structure Of A Putative Arginate Lyase From
Staphylococcus Haemolyticus
Length = 346
Score = 26.9 bits (58), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 62 HLSSLSCRSNDAHLSFISPKEYEFSCSNSPAFNFSYPFTNYGHNKRKHHHY 112
H++++ ND L+ + PK FS F F+ P N + KHH Y
Sbjct: 243 HIATIVAFENDQDLNALKPKSLSFSHE----FMFARPL-NQTDDMIKHHEY 288
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
0.321 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,073,284
Number of Sequences: 62578
Number of extensions: 289645
Number of successful extensions: 1950
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1935
Number of HSP's gapped (non-prelim): 39
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)