BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15645170|ref|NP_207340.1| cag pathogenicity island
protein (cag23) [Helicobacter pylori 26695]
(983 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb... 29 2.9
pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide... 29 2.9
pdb|1BQC|A Chain A, Beta-Mannanase From Thermomonospora Fus... 28 3.8
pdb|2CND| Nadh-Dependent Nitrate Reductase (Cytochrome B ... 28 5.0
pdb|1CNE| Nitrate Reductase (Cytochrome B Reductase Fragm... 28 5.0
pdb|2LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus... 27 8.5
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 28.9 bits (63), Expect = 2.9
Identities = 11/22 (50%), Positives = 18/22 (81%)
Query: 595 ILGSTGSGKTVFMSMTLNAMGQ 616
+LG+TG+GKTV M+ + A+G+
Sbjct: 34 LLGATGTGKTVTMAKVIEALGR 55
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 28.9 bits (63), Expect = 2.9
Identities = 11/22 (50%), Positives = 18/22 (81%)
Query: 595 ILGSTGSGKTVFMSMTLNAMGQ 616
+LG+TG+GKTV M+ + A+G+
Sbjct: 33 LLGATGTGKTVTMAKVIEALGR 54
>pdb|1BQC|A Chain A, Beta-Mannanase From Thermomonospora Fusca
pdb|2MAN|A Chain A, Mannotriose Complex Of Thermomonospora Fusca
Beta-Mannanase
pdb|3MAN|A Chain A, Mannohexaose Complex Of Thermomonospora Fusca
Beta-Mannanase
Length = 302
Score = 28.5 bits (62), Expect = 3.8
Identities = 28/118 (23%), Positives = 50/118 (41%), Gaps = 17/118 (14%)
Query: 653 EYVKIELGTDTGLNPFA----WA----ACVQKTNATMEQKQTAISVVK------ELVKNL 698
+YV I +G + N A WA A +Q+ A + + ++N
Sbjct: 119 DYVLINIGNEPYGNDSATVAAWATDTSAAIQRLRAAGFEHTLVVDAPNWGQDWTNTMRNN 178
Query: 699 ATKSDEKDENGNSI-SFSLADSNTLAAAVTNLITGDMNLDYPITQLINAFGKDHNDPN 755
A + D GN++ S + + A+ +T+ + +N P+ +I FG DH+D N
Sbjct: 179 ADQVYASDPTGNTVFSIHMYGVYSQASTITSYLEHFVNAGLPL--IIGEFGHDHSDGN 234
>pdb|2CND| Nadh-Dependent Nitrate Reductase (Cytochrome B Reductase Fragment)
(E.C.1.6.6.1) Complexed With Fad (Synchrotron X-Ray
Diffraction)
pdb|1CNF| Nitrate Reductase (Cytochrome B Reductase Fragment) (E.C.1.6.6.1)
Complexed With Fad And Adp
Length = 270
Score = 28.1 bits (61), Expect = 5.0
Identities = 20/79 (25%), Positives = 34/79 (42%), Gaps = 13/79 (16%)
Query: 374 EVYFANKHGKILNDDLSEKYFSAIEISEYAPKSQSDLFDKINALDSEFIFMHAYSPKNSQ 433
+VYF N+H K N L +Y ++ + Y D+ + ++ Y+ + S
Sbjct: 81 KVYFKNEHPKFPNGGLMTQYLDSLPVGSYI-----DVKGPLGHVE--------YTGRGSF 127
Query: 434 VLKDKLAFTSRRIIISGGS 452
V+ K R +I GGS
Sbjct: 128 VINGKQRNARRLAMICGGS 146
>pdb|1CNE| Nitrate Reductase (Cytochrome B Reductase Fragment) (E.C.1.6.6.1)
Mutant With Cys 242 Replaced By Ser (C242s) Complexed
With Fad
Length = 270
Score = 28.1 bits (61), Expect = 5.0
Identities = 20/79 (25%), Positives = 34/79 (42%), Gaps = 13/79 (16%)
Query: 374 EVYFANKHGKILNDDLSEKYFSAIEISEYAPKSQSDLFDKINALDSEFIFMHAYSPKNSQ 433
+VYF N+H K N L +Y ++ + Y D+ + ++ Y+ + S
Sbjct: 81 KVYFKNEHPKFPNGGLMTQYLDSLPVGSYI-----DVKGPLGHVE--------YTGRGSF 127
Query: 434 VLKDKLAFTSRRIIISGGS 452
V+ K R +I GGS
Sbjct: 128 VINGKQRNARRLAMICGGS 146
>pdb|2LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus Aureus
pdb|3LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus Aureus With
Phosphocholine Bound
pdb|1LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus Aureus
Length = 299
Score = 27.3 bits (59), Expect = 8.5
Identities = 32/140 (22%), Positives = 58/140 (40%), Gaps = 27/140 (19%)
Query: 282 PVMNKKHFADNNFEEFQRIIRAKLENFKDRIELIEELLSKYHPIRLKEYTKDGVIYSKQC 341
PV KK D+ ++ A + FK I ++L+ ++ I+ K Y KD ++
Sbjct: 6 PVSVKK--VDDKVTLYKTTATADSDKFK-----ISQILT-FNFIKDKSYDKDTLVLKA-- 55
Query: 342 EFYNFLVGMNEAPFICNRKDLYLKEKMHGGVKEVYFANKHGKILNDDLSEKYFSAIEISE 401
G + F+ + Y K++ G K N +S + ++ + +
Sbjct: 56 ------TGNINSGFVKPNPNDYDFSKLYWGAK-----------YNVSISSQSNDSVNVVD 98
Query: 402 YAPKSQSDLFDKINALDSEF 421
YAPK+Q++ F N L F
Sbjct: 99 YAPKNQNEEFQVQNTLGYTF 118
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.321 0.137 0.392
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,526,933
Number of Sequences: 13198
Number of extensions: 237996
Number of successful extensions: 615
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 613
Number of HSP's gapped (non-prelim): 6
length of query: 983
length of database: 2,899,336
effective HSP length: 97
effective length of query: 886
effective length of database: 1,619,130
effective search space: 1434549180
effective search space used: 1434549180
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: 59 (27.3 bits)