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= 028038
(215 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UDW|A Chain A, Crystal Structure Of The Immunoreceptor Tigit In Complex
With Poliovirus Receptor (PvrCD155NECL-5) D1 Domain
pdb|3UDW|B Chain B, Crystal Structure Of The Immunoreceptor Tigit In Complex
With Poliovirus Receptor (PvrCD155NECL-5) D1 Domain
Length = 110
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 46 TVRNTGDVSAETGSTEIEPEARSDPSSLISALNVERALRGIAITDAD 92
T+ TG++SAE G + I S ++ ++ +N E+ + +AI +AD
Sbjct: 8 TIETTGNISAEKGGSIILQCHLSSTTAQVTQVNWEQQDQLLAICNAD 54
>pdb|3UCR|A Chain A, Crystal Structure Of The Immunoreceptor Tigit Igv Domain
pdb|3UCR|B Chain B, Crystal Structure Of The Immunoreceptor Tigit Igv Domain
pdb|3UCR|C Chain C, Crystal Structure Of The Immunoreceptor Tigit Igv Domain
pdb|3UCR|D Chain D, Crystal Structure Of The Immunoreceptor Tigit Igv Domain
Length = 110
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 46 TVRNTGDVSAETGSTEIEPEARSDPSSLISALNVERALRGIAITDAD 92
T+ TG++SAE G + I S ++ ++ +N E+ + +AI +AD
Sbjct: 8 TIETTGNISAEKGGSIILQCHLSSTTAQVTQVNWEQQDQLLAICNAD 54
>pdb|3Q0H|A Chain A, Structure Of T-Cell Immunoreceptor With Immunoglobulin
And Itim Domains (Tigit)
pdb|3Q0H|B Chain B, Structure Of T-Cell Immunoreceptor With Immunoglobulin
And Itim Domains (Tigit)
Length = 117
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 46 TVRNTGDVSAETGSTEIEPEARSDPSSLISALNVERALRGIAITDAD 92
T+ TG++SAE G + I S ++ ++ +N E+ + +AI +AD
Sbjct: 6 TIETTGNISAEKGGSIILQCHLSSTTAQVTQVNWEQQDQLLAICNAD 52
>pdb|3RQ3|A Chain A, Structure Of T-Cell Immunoreceptor With Immunoglobulin
And Itim Domains (Tigit) In Hexagonal Crystal Form
pdb|3RQ3|B Chain B, Structure Of T-Cell Immunoreceptor With Immunoglobulin
And Itim Domains (Tigit) In Hexagonal Crystal Form
Length = 116
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 46 TVRNTGDVSAETGSTEIEPEARSDPSSLISALNVERALRGIAITDAD 92
T+ TG++SAE G + I S ++ ++ +N E+ + +AI +AD
Sbjct: 5 TIETTGNISAEKGGSIILQCHLSSTTAQVTQVNWEQQDQLLAICNAD 51
>pdb|3H1C|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|B Chain B, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|C Chain C, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|G Chain G, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|I Chain I, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|K Chain K, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|M Chain M, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|O Chain O, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|R Chain R, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|T Chain T, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|V Chain V, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|X Chain X, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
Length = 549
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 22/120 (18%)
Query: 22 SPKRNS-----LLSHSINSYFPTRPRKQLTVRNTGDVSAETGSTEIEPEARSDPSSLISA 76
SPKR L + + P + TVR +++ GS+ + + + + +
Sbjct: 395 SPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAG 454
Query: 77 LNVERALRGIA----------------ITDADHYGRLELRRGCSFDEV-ALAYKNKLEGL 119
+ ++ A+ GIA + D DH G ++ + S D + AL K+EG+
Sbjct: 455 VPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGI 514
>pdb|3GCM|A Chain A, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GCM|B Chain B, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GCM|C Chain C, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GLL|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core
pdb|3GME|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase In
Complex With Rnase E And Manganese
Length = 549
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 22/120 (18%)
Query: 22 SPKRNS-----LLSHSINSYFPTRPRKQLTVRNTGDVSAETGSTEIEPEARSDPSSLISA 76
SPKR L + + P + TVR +++ GS+ + + + + +
Sbjct: 395 SPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAG 454
Query: 77 LNVERALRGIA----------------ITDADHYGRLELRRGCSFDEV-ALAYKNKLEGL 119
+ ++ A+ GIA + D DH G ++ + S D + AL K+EG+
Sbjct: 455 VPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGI 514
>pdb|3CDJ|A Chain A, Crystal Structure Of The E. Coli KhS1 DOMAIN TRUNCATED
Pnpase
Length = 559
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 22/120 (18%)
Query: 22 SPKRNS-----LLSHSINSYFPTRPRKQLTVRNTGDVSAETGSTEIEPEARSDPSSLISA 76
SPKR L + + P + TVR +++ GS+ + + + + +
Sbjct: 401 SPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAG 460
Query: 77 LNVERALRGIA----------------ITDADHYGRLELRRGCSFDEV-ALAYKNKLEGL 119
+ ++ A+ GIA + D DH G ++ + S D + AL K+EG+
Sbjct: 461 VPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGI 520
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 26.6 bits (57), Expect = 9.6, Method: Composition-based stats.
Identities = 26/123 (21%), Positives = 50/123 (40%), Gaps = 22/123 (17%)
Query: 22 SPKRNS-----LLSHSINSYFPTRPRKQLTVRNTGDVSAETGSTEIEPEARSDPSSLISA 76
SPKR L + + P + TVR +++ GS+ + + + + +
Sbjct: 401 SPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAG 460
Query: 77 LNVERALRGIA----------------ITDADHYGRLELRRGCSFDEV-ALAYKNKLEGL 119
+ ++ A+ GIA + D DH G ++ + S D + AL K+EG+
Sbjct: 461 VPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGI 520
Query: 120 KDQ 122
+
Sbjct: 521 TKE 523
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
0.315 0.132 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,674,048
Number of Sequences: 62578
Number of extensions: 198840
Number of successful extensions: 300
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 295
Number of HSP's gapped (non-prelim): 9
length of query: 215
length of database: 14,973,337
effective HSP length: 95
effective length of query: 120
effective length of database: 9,028,427
effective search space: 1083411240
effective search space used: 1083411240
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)