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= 021789
(307 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SRU|A Chain A, Crystal Structure Of Full Length E. Coli Ssb Protein
pdb|1SRU|B Chain B, Crystal Structure Of Full Length E. Coli Ssb Protein
pdb|1SRU|C Chain C, Crystal Structure Of Full Length E. Coli Ssb Protein
pdb|1SRU|D Chain D, Crystal Structure Of Full Length E. Coli Ssb Protein
Length = 113
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 108 WIPILFEGDLAHIASSHLKKDDHVHIAGQL 137
W ++ G LA +AS +L+K V+I GQL
Sbjct: 55 WHRVVLFGKLAEVASEYLRKGSQVYIEGQL 84
>pdb|1EYG|A Chain A, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|B Chain B, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|C Chain C, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|D Chain D, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
Length = 116
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 108 WIPILFEGDLAHIASSHLKKDDHVHIAGQL 137
W ++ G LA +AS +L+K V+I GQL
Sbjct: 55 WHRVVLFGKLAEVASEYLRKGSQVYIEGQL 84
>pdb|1QVC|A Chain A, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
pdb|1QVC|B Chain B, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
pdb|1QVC|C Chain C, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
pdb|1QVC|D Chain D, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
Length = 145
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 108 WIPILFEGDLAHIASSHLKKDDHVHIAGQL 137
W ++ G LA +AS +L+K V+I GQL
Sbjct: 54 WHRVVLFGKLAEVASEYLRKGSQVYIEGQL 83
>pdb|1KAW|A Chain A, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|B Chain B, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|C Chain C, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|D Chain D, Structure Of Single Stranded Dna Binding Protein (Ssb)
Length = 135
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 108 WIPILFEGDLAHIASSHLKKDDHVHIAGQL 137
W ++ G LA +AS +L+K V+I GQL
Sbjct: 54 WHRVVLFGKLAEVASEYLRKGSQVYIEGQL 83
>pdb|1EQQ|A Chain A, Single Stranded Dna Binding Protein And Ssdna Complex
pdb|1EQQ|B Chain B, Single Stranded Dna Binding Protein And Ssdna Complex
pdb|1EQQ|C Chain C, Single Stranded Dna Binding Protein And Ssdna Complex
pdb|1EQQ|D Chain D, Single Stranded Dna Binding Protein And Ssdna Complex
Length = 178
Score = 32.0 bits (71), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 105 HSLWIPILFEGDLAHIASSHLKKDDHVHIAGQL 137
+ W ++ G LA +AS +L+K V+I GQL
Sbjct: 52 QTEWHRVVLFGKLAEVASEYLRKGSQVYIEGQL 84
>pdb|3CNF|A Chain A, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus
By Cryo-Electron Microscopy
pdb|3CNF|B Chain B, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus
By Cryo-Electron Microscopy
pdb|3IZX|B Chain B, 3.1 Angstrom Cryoem Structure Of Cytoplasmic Polyhedrosis
Virus
pdb|3IZX|C Chain C, 3.1 Angstrom Cryoem Structure Of Cytoplasmic Polyhedrosis
Virus
Length = 1333
Score = 31.2 bits (69), Expect = 0.79, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
Query: 129 DHVHIAGQL---TADPPAIEG---QANVQVMVHSLNLIEPTSQKRMF--FVSKKQEAATV 180
DH HI L A+ P +EG Q N V S N+I P S+KR F + + Q AA +
Sbjct: 404 DHDHIIRCLMLAAANYPRLEGIIVQINTG-YVASANVIRPVSEKRYFPENLEQNQSAARL 462
Query: 181 DHSVKISSSKKD 192
+VK +S+ D
Sbjct: 463 VSAVKARASEAD 474
>pdb|3IZ3|B Chain B, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
pdb|3IZ3|C Chain C, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
pdb|3J17|B Chain B, Structure Of A Transcribing Cypovirus By Cryo-Electron
Microscopy
pdb|3J17|C Chain C, Structure Of A Transcribing Cypovirus By Cryo-Electron
Microscopy
Length = 1333
Score = 31.2 bits (69), Expect = 0.81, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
Query: 129 DHVHIAGQL---TADPPAIEG---QANVQVMVHSLNLIEPTSQKRMF--FVSKKQEAATV 180
DH HI L A+ P +EG Q N V S N+I P S+KR F + + Q AA +
Sbjct: 404 DHDHIIRCLMLAAANYPRLEGIIVQINTG-YVASANVIRPVSEKRYFPENLEQNQSAARL 462
Query: 181 DHSVKISSSKKD 192
+VK +S+ D
Sbjct: 463 VSAVKARASEAD 474
>pdb|2H3N|B Chain B, Crystal Structure Of A Surrogate Light Chain (Lambda5 And
Vpreb) Homodimer
pdb|2H3N|D Chain D, Crystal Structure Of A Surrogate Light Chain (Lambda5 And
Vpreb) Homodimer
Length = 117
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 4/75 (5%)
Query: 141 PPAIEGQANVQVMVHSLNLIEPTSQKRMFFVSKKQEAATVDHSVKISSSKKDGDSALSSW 200
P + E QAN +V +N P + V+ K + + V++++ K ++ ++
Sbjct: 28 PSSEELQANKATLVCLMNDFYP----GILTVTWKADGTPITQGVEMTTPSKQSNNKYAAS 83
Query: 201 RDLLDNPEQWRDYRS 215
L PEQWR RS
Sbjct: 84 SYLSLTPEQWRSRRS 98
>pdb|2H32|B Chain B, Crystal Structure Of The Pre-B Cell Receptor
Length = 121
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 4/75 (5%)
Query: 141 PPAIEGQANVQVMVHSLNLIEPTSQKRMFFVSKKQEAATVDHSVKISSSKKDGDSALSSW 200
P + E QAN +V +N P + V+ K + + V++++ K ++ ++
Sbjct: 29 PSSEELQANKATLVCLMNDFYP----GILTVTWKADGTPITQGVEMTTPSKQSNNKYAAS 84
Query: 201 RDLLDNPEQWRDYRS 215
L PEQWR RS
Sbjct: 85 SYLSLTPEQWRSRRS 99
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 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,315,655
Number of Sequences: 62578
Number of extensions: 377109
Number of successful extensions: 980
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 974
Number of HSP's gapped (non-prelim): 61
length of query: 307
length of database: 14,973,337
effective HSP length: 99
effective length of query: 208
effective length of database: 8,778,115
effective search space: 1825847920
effective search space used: 1825847920
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: 51 (24.3 bits)