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|15644757|ref|NP_206927.1| outer membrane protein
(omp4) [Helicobacter pylori 26695]
(286 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|1BBD|H Chain H, Fab Fragment Of 8f5 Antibody Against Hu... 29 0.71
pdb|1A5F|H Chain H, Fab Fragment Of A Monoclonal Anti-E-Sel... 28 0.92
pdb|1QBL|H Chain H, Fab E8 (Fabe8a) X-Ray Structure At 2.26... 28 1.2
pdb|1WEJ|H Chain H, Igg1 Fab Fragment (Of E8 Antibody) Comp... 28 1.2
pdb|1QBM|H Chain H, Fab E8b Antibody, X-Ray Structure At 2.... 28 1.2
pdb|1VBB|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SA... 28 1.6
pdb|1PVC|1 Chain 1, Mol_id: 1; Molecule: Poliovirus Type 3,... 28 1.6
pdb|1VBE|1 Chain 1, Poliovirus (Type 3, Sabin Strain, Mutan... 28 1.6
pdb|1AJ7|H Chain H, Immunoglobulin 48g7 Germline Fab Antibo... 27 2.7
pdb|1DZB|A Chain A, Crystal Structure Of Phage Library-Deri... 27 2.7
pdb|1GAF|H Chain H, 48g7 Hybridoma Line Fab Complexed With ... 25 7.8
pdb|1QOK|A Chain A, Mfe-23 An Anti-Carcinoembryonic Antigen... 25 7.8
pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Comp... 25 7.8
>pdb|1BBD|H Chain H, Fab Fragment Of 8f5 Antibody Against Human Rhinovirus
Serotype 2
pdb|1A3R|H Chain H, Fab Fragment (Antibody 8f5) Complexed With Peptide From
Human Rhinovirus (Serotype 2) Viral Capsid Protein Vp2
(Residues 156 - 170)
Length = 218
Score = 28.9 bits (63), Expect = 0.71
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D A+ Y KY
Sbjct: 25 SGFNIKDIYIHWVKQRPEQGLEWIGRLDPANGYTKY 60
>pdb|1A5F|H Chain H, Fab Fragment Of A Monoclonal Anti-E-Selectin Antibody
Length = 217
Score = 28.5 bits (62), Expect = 0.92
Identities = 13/38 (34%), Positives = 19/38 (49%)
Query: 109 AINGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
A +GF Y H+ K+ P+ G+ + G D SS Y
Sbjct: 23 AASGFTIKDAYMHWVKQKPEQGLEWIGRIDSGSSNTNY 60
>pdb|1QBL|H Chain H, Fab E8 (Fabe8a) X-Ray Structure At 2.26 Angstrom
Resolution
Length = 219
Score = 28.1 bits (61), Expect = 1.2
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D AS KY
Sbjct: 25 SGFNIKDTYMHWVKQRPEKGLEWIGRIDPASGNTKY 60
>pdb|1WEJ|H Chain H, Igg1 Fab Fragment (Of E8 Antibody) Complexed With Horse
Cytochrome C At 1.8 A Resolution
Length = 223
Score = 28.1 bits (61), Expect = 1.2
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D AS KY
Sbjct: 25 SGFNIKDTYMHWVKQRPEKGLEWIGRIDPASGNTKY 60
>pdb|1QBM|H Chain H, Fab E8b Antibody, X-Ray Structure At 2.37 Angstroms
Resolution
Length = 219
Score = 28.1 bits (61), Expect = 1.2
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D AS KY
Sbjct: 25 SGFNIKDTYMHWVKQRPEKGLEWIGRIDPASGNTKY 60
>pdb|1VBB|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)B)
COMPLEXED WITH R80633
pdb|1VBC|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)B)
COMPLEXED WITH R77975
pdb|1VBA|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)B)
COMPLEXED WITH R78206
Length = 300
Score = 27.7 bits (60), Expect = 1.6
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 15/80 (18%)
Query: 82 TASNPTGGFTHGALGTR---GYKGLSNQQYAINGFGFVVGYKHFFKKSPQFGMRYYGFFD 138
T+SNP+ +T+GA R Y GL+N Y HF+ + ++
Sbjct: 175 TSSNPSIFYTYGAAPARISVPYVGLAN------------AYSHFYDGFAKVPLKTDANDQ 222
Query: 139 FASSYYKYYTYNDYGMRDAR 158
S Y T +D+G+ R
Sbjct: 223 IGDSLYSAMTVDDFGVLAVR 242
>pdb|1PVC|1 Chain 1, Mol_id: 1; Molecule: Poliovirus Type 3, Sabin Strain;
Chain: 0, 1, 2, 3, 4; Other_details: P3SABIN
P3LEON12A(1)B
pdb|1PIV|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN; P3LEON12A(1)B)
COMPLEXED WITH DISOXARIL (WIN 51711)
Length = 301
Score = 27.7 bits (60), Expect = 1.6
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 15/80 (18%)
Query: 82 TASNPTGGFTHGALGTR---GYKGLSNQQYAINGFGFVVGYKHFFKKSPQFGMRYYGFFD 138
T+SNP+ +T+GA R Y GL+N Y HF+ + ++
Sbjct: 176 TSSNPSIFYTYGAAPARISVPYVGLAN------------AYSHFYDGFAKVPLKTDANDQ 223
Query: 139 FASSYYKYYTYNDYGMRDAR 158
S Y T +D+G+ R
Sbjct: 224 IGDSLYSAMTVDDFGVLAVR 243
>pdb|1VBE|1 Chain 1, Poliovirus (Type 3, Sabin Strain, Mutant 242-H2) Complexed
With R78206
Length = 300
Score = 27.7 bits (60), Expect = 1.6
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 15/80 (18%)
Query: 82 TASNPTGGFTHGALGTR---GYKGLSNQQYAINGFGFVVGYKHFFKKSPQFGMRYYGFFD 138
T+SNP+ +T+GA R Y GL+N Y HF+ + ++
Sbjct: 175 TSSNPSIFYTYGAAPARISVPYVGLAN------------AYSHFYDGFAKVPLKTDANDQ 222
Query: 139 FASSYYKYYTYNDYGMRDAR 158
S Y T +D+G+ R
Sbjct: 223 IGDSLYSAMTVDDFGVLAVR 242
>pdb|1AJ7|H Chain H, Immunoglobulin 48g7 Germline Fab Antibody Complexed With
Hapten 5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid.
Affinity Maturation Of An Esterolytic Antibody
pdb|2RCS|H Chain H, Immunoglobulin 48g7 Germline Fab - Affinity Maturation Of
An Esterolytic Antibody
Length = 217
Score = 26.9 bits (58), Expect = 2.7
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D A+ KY
Sbjct: 25 SGFNIKDTYMHWVKQRPEQGLEWIGRIDPANGNTKY 60
>pdb|1DZB|A Chain A, Crystal Structure Of Phage Library-Derived Single-Chain Fv
Fragment 1f9 In Complex With Turkey Egg-White Lysozyme
pdb|1DZB|B Chain B, Crystal Structure Of Phage Library-Derived Single-Chain Fv
Fragment 1f9 In Complex With Turkey Egg-White Lysozyme
Length = 253
Score = 26.9 bits (58), Expect = 2.7
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D A+ KY
Sbjct: 25 SGFNIKDTYMHWVKQRPEQGLEWIGRIDPANGNTKY 60
>pdb|1GAF|H Chain H, 48g7 Hybridoma Line Fab Complexed With Hapten
5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid
pdb|1HKL|H Chain H, Free And Liganded Form Of An Esterolytic Catalytic
Antibody
Length = 217
Score = 25.4 bits (54), Expect = 7.8
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFDFASSYYKY 146
+GF Y H+ K+ P+ G+ + G D A+ KY
Sbjct: 25 SGFNIKDTYMHWVKQRPKQGLEWIGRIDPANVDTKY 60
>pdb|1QOK|A Chain A, Mfe-23 An Anti-Carcinoembryonic Antigen Single-Chain Fv
Antibody
Length = 282
Score = 25.4 bits (54), Expect = 7.8
Identities = 8/28 (28%), Positives = 16/28 (56%)
Query: 111 NGFGFVVGYKHFFKKSPQFGMRYYGFFD 138
+GF Y H+ ++ P+ G+ + G+ D
Sbjct: 51 SGFNIKDSYMHWLRQGPEQGLEWIGWID 78
>pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
pdb|1JCH|C Chain C, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
Length = 551
Score = 25.4 bits (54), Expect = 7.8
Identities = 16/43 (37%), Positives = 19/43 (43%)
Query: 62 HGNCNGNQSGAYGSNTPNMPTASNPTGGFTHGALGTRGYKGLS 104
HGN GN + GS T +A F AL T G GL+
Sbjct: 62 HGNGGGNGNSGGGSGTGGNLSAVAAPVAFGFPALSTPGAGGLA 104
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 0.138 0.427
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,909,084
Number of Sequences: 13198
Number of extensions: 88941
Number of successful extensions: 268
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 258
Number of HSP's gapped (non-prelim): 13
length of query: 286
length of database: 2,899,336
effective HSP length: 87
effective length of query: 199
effective length of database: 1,751,110
effective search space: 348470890
effective search space used: 348470890
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)