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|15645118|ref|NP_207288.1| ribosomal protein L28
(rpL28) [Helicobacter pylori 26695]
(62 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|1K3W|A Chain A, Crystal Structure Of A Trapped Reaction... 23 4.9
pdb|1GAF|L Chain L, 48g7 Hybridoma Line Fab Complexed With ... 23 6.4
pdb|1AJ7|L Chain L, Immunoglobulin 48g7 Germline Fab Antibo... 23 8.4
pdb|1IK7|A Chain A, Crystal Structure Of The Uncomplexed Pe... 23 8.4
pdb|1KNO|A Chain A, Mol_id: 1; Molecule: Igg2a Fab Fragment... 23 8.4
pdb|2GFB|A Chain A, Igg2a Fab Fragment (Cnj206) >gi|640173|... 23 8.4
>pdb|1K3W|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of
The Dna Repair Enzyme Endonuclease Viii With Dna
pdb|1K3X|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of
The Dna Repair Enzyme Endonuclease Viii With
Brominated-Dna
Length = 262
Score = 23.5 bits (49), Expect = 4.9
Identities = 8/22 (36%), Positives = 13/22 (58%)
Query: 8 TFKGPMIGNHVSHANNKNKRRL 29
T++ +IG HV+H + K L
Sbjct: 34 TYQSQLIGQHVTHVETRGKALL 55
>pdb|1GAF|L Chain L, 48g7 Hybridoma Line Fab Complexed With Hapten
5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid
pdb|1HKL|L Chain L, Free And Liganded Form Of An Esterolytic Catalytic
Antibody
Length = 214
Score = 23.1 bits (48), Expect = 6.4
Identities = 11/19 (57%), Positives = 13/19 (67%)
Query: 39 QLDDGTTKRIKVAASTLRT 57
Q DGT KR+ AASTL +
Sbjct: 38 QKPDGTIKRLIYAASTLHS 56
>pdb|1AJ7|L Chain L, Immunoglobulin 48g7 Germline Fab Antibody Complexed With
Hapten 5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid.
Affinity Maturation Of An Esterolytic Antibody
pdb|2RCS|L Chain L, Immunoglobulin 48g7 Germline Fab - Affinity Maturation
Of An Esterolytic Antibody
Length = 214
Score = 22.7 bits (47), Expect = 8.4
Identities = 11/17 (64%), Positives = 12/17 (69%)
Query: 39 QLDDGTTKRIKVAASTL 55
Q DGT KR+ AASTL
Sbjct: 38 QKPDGTIKRLIYAASTL 54
>pdb|1IK7|A Chain A, Crystal Structure Of The Uncomplexed Pelle Death Domain
pdb|1IK7|B Chain B, Crystal Structure Of The Uncomplexed Pelle Death Domain
pdb|1D2Z|C Chain C, Three-Dimensional Structure Of A Complex Between The
Death Domains Of Pelle And Tube
pdb|1D2Z|A Chain A, Three-Dimensional Structure Of A Complex Between The
Death Domains Of Pelle And Tube
Length = 108
Score = 22.7 bits (47), Expect = 8.4
Identities = 9/17 (52%), Positives = 12/17 (69%)
Query: 15 GNHVSHANNKNKRRLLP 31
G+H+SH +N RLLP
Sbjct: 1 GSHMSHLDNTMAIRLLP 17
>pdb|1KNO|A Chain A, Mol_id: 1; Molecule: Igg2a Fab Fragment Cnj206; Chain:
A, B, C, D, E, F; Heterogen: P-Nitrophenyl Methyl
Phosphonate
pdb|1KNO|C Chain C, Mol_id: 1; Molecule: Igg2a Fab Fragment Cnj206; Chain:
A, B, C, D, E, F; Heterogen: P-Nitrophenyl Methyl
Phosphonate
pdb|1KNO|E Chain E, Mol_id: 1; Molecule: Igg2a Fab Fragment Cnj206; Chain:
A, B, C, D, E, F; Heterogen: P-Nitrophenyl Methyl
Phosphonate
Length = 214
Score = 22.7 bits (47), Expect = 8.4
Identities = 11/17 (64%), Positives = 12/17 (69%)
Query: 39 QLDDGTTKRIKVAASTL 55
Q DGT KR+ AASTL
Sbjct: 38 QKPDGTIKRLIYAASTL 54
>pdb|2GFB|A Chain A, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|C Chain C, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|E Chain E, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|G Chain G, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|I Chain I, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|K Chain K, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|M Chain M, Igg2a Fab Fragment (Cnj206)
pdb|2GFB|O Chain O, Igg2a Fab Fragment (Cnj206)
Length = 214
Score = 22.7 bits (47), Expect = 8.4
Identities = 11/17 (64%), Positives = 12/17 (69%)
Query: 39 QLDDGTTKRIKVAASTL 55
Q DGT KR+ AASTL
Sbjct: 38 QKPDGTIKRLIYAASTL 54
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 0.132 0.372
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 314,313
Number of Sequences: 13198
Number of extensions: 8326
Number of successful extensions: 17
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 11
Number of HSP's gapped (non-prelim): 6
length of query: 62
length of database: 2,899,336
effective HSP length: 38
effective length of query: 24
effective length of database: 2,397,812
effective search space: 57547488
effective search space used: 57547488
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: 47 (22.7 bits)