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|15646053|ref|NP_208235.1| small protein (smpB)
[Helicobacter pylori 26695]
(152 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|1K8H|A Chain A, Nmr Structure Of Small Protein B (Smpb)... 99 3e-22
pdb|1FWU|A Chain A, Crystal Structure Of The Cysteine-Rich ... 28 0.35
pdb|1DQG|A Chain A, Crystal Structure Of The Cysteine Rich ... 28 0.35
pdb|1CG2|A Chain A, Carboxypeptidase G2 >gi|2780969|pdb|1CG... 25 5.1
pdb|1CZ3|B Chain B, Dihydrofolate Reductase From Thermotoga... 24 6.6
>pdb|1K8H|A Chain A, Nmr Structure Of Small Protein B (Smpb) From Aquifex
Aeolicus
Length = 133
Score = 98.6 bits (244), Expect = 3e-22
Identities = 57/128 (44%), Positives = 91/128 (70%), Gaps = 5/128 (3%)
Query: 4 IASNKKAYFDYEILETLEAGLALLGSEVKALRQT-RVNLKDNFVKIIKGEAFLFGVHISY 62
IA NK+A Y+ILET EAG+ L GSEVK+LR+ V+ KD+FV+I GEA+L+ ++I+
Sbjct: 9 IAENKEAKAKYDILETYEAGIVLKGSEVKSLREKGTVSFKDSFVRIENGEAWLYNLYIAP 68
Query: 63 LDTIHAYYKPNE-RRERKLLLHKKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIALV 121
HA + ++ R+RKLLLHK+++++ + ++ +I+ LKLY+ + N+ K+ IAL
Sbjct: 69 YK--HATIENHDPLRKRKLLLHKREIMRLYGKVQEKGYTIIPLKLYW-KNNKVKVLIALA 125
Query: 122 KGKRLHDK 129
KGK+L+D+
Sbjct: 126 KGKKLYDR 133
>pdb|1FWU|A Chain A, Crystal Structure Of The Cysteine-Rich Domain Of Mannose
Receptor Complexed With 3-So4-Lewis(X)
pdb|1FWV|A Chain A, Crystal Structure Of The Cysteine-Rich Domain Of Mannose
Receptor Complexed With 3-So4-Lewis(A)
Length = 134
Score = 28.5 bits (62), Expect = 0.35
Identities = 16/43 (37%), Positives = 22/43 (50%), Gaps = 1/43 (2%)
Query: 84 KKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIALVKGKRL 126
K + KW+ + + I G +LYFN NR + I L KG L
Sbjct: 74 KSEYQKWECK-NDTLFGIKGTELYFNYGNRQEKNIKLYKGSGL 115
>pdb|1DQG|A Chain A, Crystal Structure Of The Cysteine Rich Domain Of Mannose
Receptor
pdb|1DQO|A Chain A, Crystal Structure Of The Cysteine Rich Domain Of Mannose
Receptor Complexed With Acetylgalactosamine-4-Sulfate
Length = 135
Score = 28.5 bits (62), Expect = 0.35
Identities = 16/43 (37%), Positives = 22/43 (50%), Gaps = 1/43 (2%)
Query: 84 KKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIALVKGKRL 126
K + KW+ + + I G +LYFN NR + I L KG L
Sbjct: 75 KSEYQKWECK-NDTLFGIKGTELYFNYGNRQEKNIKLYKGSGL 116
>pdb|1CG2|A Chain A, Carboxypeptidase G2
pdb|1CG2|C Chain C, Carboxypeptidase G2
pdb|1CG2|B Chain B, Carboxypeptidase G2
pdb|1CG2|D Chain D, Carboxypeptidase G2
Length = 393
Score = 24.6 bits (52), Expect = 5.1
Identities = 16/48 (33%), Positives = 25/48 (51%)
Query: 20 LEAGLALLGSEVKALRQTRVNLKDNFVKIIKGEAFLFGVHISYLDTIH 67
LEA L LG V + + + DN V IKG + +S++DT++
Sbjct: 48 LEAELKNLGFTVTRSKSAGLVVGDNIVGKIKGRGGKNLLLMSHMDTVY 95
>pdb|1CZ3|B Chain B, Dihydrofolate Reductase From Thermotoga Maritima
pdb|1D1G|A Chain A, Dihydrofolate Reductase From Thermotoga Maritima
pdb|1D1G|B Chain B, Dihydrofolate Reductase From Thermotoga Maritima
pdb|1CZ3|A Chain A, Dihydrofolate Reductase From Thermotoga Maritima
Length = 168
Score = 24.3 bits (51), Expect = 6.6
Identities = 17/72 (23%), Positives = 29/72 (39%), Gaps = 2/72 (2%)
Query: 24 LALLGSEVKALRQTRVNLKDNFVKIIKGEAFLFGVHISYLDTIHAYYKPNERRERKLLLH 83
+A++G + R L D + E ++FG I + D Y+ R+L
Sbjct: 97 VAVIGGKTVFTEFLREKLVDELFVTV--EPYVFGKGIPFFDEFEGYFPLKLLEMRRLNER 154
Query: 84 KKQLLKWQIEAS 95
LK+ +E S
Sbjct: 155 GTLFLKYSVEKS 166
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 0.380
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 767,863
Number of Sequences: 13198
Number of extensions: 25985
Number of successful extensions: 54
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 47
Number of HSP's gapped (non-prelim): 5
length of query: 152
length of database: 2,899,336
effective HSP length: 80
effective length of query: 72
effective length of database: 1,843,496
effective search space: 132731712
effective search space used: 132731712
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: 50 (23.9 bits)