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|15645932|ref|NP_208111.1| ribosomal protein L3 (rpl3)
[Helicobacter pylori 26695]
(191 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223957.1| 50S RIBOSOMAL PROTEIN L3 [Helicobacter pyl... 381 e-108
ref|NP_224042.1| putative [Helicobacter pylori J99] 32 0.011
ref|NP_223322.1| putative [Helicobacter pylori J99] 31 0.019
ref|NP_223767.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRA... 25 1.3
ref|NP_223617.1| putative [Helicobacter pylori J99] 25 1.3
ref|NP_224147.1| ZINC-DEPENDENT ALCOHOL DEHYDROGENASE [Heli... 24 2.3
ref|NP_223718.1| GLUTAMATE DEHYDROGENASE [Helicobacter pylo... 23 3.9
ref|NP_222811.1| THREONINE SYNTHASE [Helicobacter pylori J99] 23 3.9
ref|NP_223849.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRA... 23 6.6
ref|NP_223747.1| ZINC-DEPENDENT ALCOHOL DEHYDROGENASE [Heli... 23 6.6
ref|NP_223120.1| putative [Helicobacter pylori J99] 23 6.6
ref|NP_223335.1| INTEGRASE-RECOMBINASE PROTEIN (XERCD FAMIL... 22 8.6
ref|NP_223277.1| putative chemotaxis protein [Helicobacter ... 22 8.6
>ref|NP_223957.1| 50S RIBOSOMAL PROTEIN L3 [Helicobacter pylori J99]
Length = 191
Score = 381 bits (979), Expect = e-108
Identities = 190/191 (99%), Positives = 191/191 (99%)
Query: 1 MEFLVQKIGMSRTIDANSTPVTLLKVLQAKVCQLENGKALVAYAMHKKHNKAIEGQQKKY 60
MEFLVQKIGMSRTIDANSTPVTLLKVLQAKVCQLENGKALVAYAMHKK+NKAIEGQQKKY
Sbjct: 1 MEFLVQKIGMSRTIDANSTPVTLLKVLQAKVCQLENGKALVAYAMHKKYNKAIEGQQKKY 60
Query: 61 QLSKEFNHFATLKASQQKELGDLDLSALETLKRVKASFKTKGRGFAGVMKRWNFQGGPAA 120
QLSKEFNHFATLKASQQKELGDLDLSALETLKRVKASFKTKGRGFAGVMKRWNFQGGPAA
Sbjct: 61 QLSKEFNHFATLKASQQKELGDLDLSALETLKRVKASFKTKGRGFAGVMKRWNFQGGPAA 120
Query: 121 HGSRFHRRPGSIGNREWPGRVQKGRKMAGHYGNELVTCQNEVLSFDKESMVLVLKGSVAG 180
HGSRFHRRPGSIGNREWPGRVQKGRKMAGHYGNELVTCQNEVLSFDKESMVLVLKGSVAG
Sbjct: 121 HGSRFHRRPGSIGNREWPGRVQKGRKMAGHYGNELVTCQNEVLSFDKESMVLVLKGSVAG 180
Query: 181 FSGAYGRIRAV 191
FSGAYGRIRAV
Sbjct: 181 FSGAYGRIRAV 191
>ref|NP_224042.1| putative [Helicobacter pylori J99]
Length = 329
Score = 32.0 bits (71), Expect = 0.011
Identities = 19/38 (50%), Positives = 20/38 (52%)
Query: 58 KKYQLSKEFNHFATLKASQQKELGDLDLSALETLKRVK 95
K L E HFATLK K L L L ALE L+R K
Sbjct: 263 KGLSLESEVKHFATLKPKSFKNLDALLLEALEFLERHK 300
>ref|NP_223322.1| putative [Helicobacter pylori J99]
Length = 413
Score = 31.2 bits (69), Expect = 0.019
Identities = 21/70 (30%), Positives = 31/70 (44%)
Query: 41 VAYAMHKKHNKAIEGQQKKYQLSKEFNHFATLKASQQKELGDLDLSALETLKRVKASFKT 100
V YA +A+EG++++ L K+ K + KEL + DL E K KA K
Sbjct: 17 VVYAEPDSKVEALEGRKQESSLDKKIRQELKSKELKNKELKNKDLKNKEEKKETKAKRKP 76
Query: 101 KGRGFAGVMK 110
+ G K
Sbjct: 77 RAEVHHGDAK 86
>ref|NP_223767.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE) [Helicobacter
pylori J99]
Length = 321
Score = 25.0 bits (53), Expect = 1.3
Identities = 16/60 (26%), Positives = 29/60 (47%), Gaps = 1/60 (1%)
Query: 21 VTLLKVLQAKVCQLENGKALVAYAMHKKHNKAIEG-QQKKYQLSKEFNHFATLKASQQKE 79
+ +LKV Q K LEN K L+ + + I+ Q+ Y + + A + +Q++E
Sbjct: 98 IRILKVKQPKCFLLENVKGLIHHKQQETFKTIIKALQEAGYTTHYQILNSADFQLAQKRE 157
>ref|NP_223617.1| putative [Helicobacter pylori J99]
Length = 500
Score = 25.0 bits (53), Expect = 1.3
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 53 IEGQQKKYQLSKEFNHFATLKASQQKELGDLDLSALETLKRVKASFKTKGRGFAGVMKR 111
+E + +KY+ +EFN + +QKE L A E ++ V + + + KR
Sbjct: 117 LENEHEKYE--REFNRIVEEEVKKQKEKQSLSNRAKEGIRNVGNKMLGRNKSDEEIEKR 173
>ref|NP_224147.1| ZINC-DEPENDENT ALCOHOL DEHYDROGENASE [Helicobacter pylori J99]
Length = 365
Score = 24.3 bits (51), Expect = 2.3
Identities = 12/49 (24%), Positives = 19/49 (38%)
Query: 121 HGSRFHRRPGSIGNREWPGRVQKGRKMAGHYGNELVTCQNEVLSFDKES 169
H ++ +I W G Y N +V +N V+S KE+
Sbjct: 114 HQEQWCENNKTIYTYSWEDSFHNNEPTYGGYSNNIVVSENFVISIPKEA 162
>ref|NP_223718.1| GLUTAMATE DEHYDROGENASE [Helicobacter pylori J99]
Length = 448
Score = 23.5 bits (49), Expect = 3.9
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 51 KAIEGQQKKYQLSKEFNHFATLKASQQKELGDLDLS 86
K ++ QKKY KEF+ + K L D D S
Sbjct: 5 KILQSLQKKYPYQKEFHQAVYEAITSLKPLLDSDKS 40
>ref|NP_222811.1| THREONINE SYNTHASE [Helicobacter pylori J99]
Length = 486
Score = 23.5 bits (49), Expect = 3.9
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 47 KKHNKAIEGQQKKYQLSKEFNHFATLKASQQKELGDLDLSALETLK 92
K H K + Y+ + TL A +++ D D +ALETLK
Sbjct: 403 KTHEKTLVSATASYEKFPK----TTLLALNEQKKNDDDKAALETLK 444
>ref|NP_223849.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE) [Helicobacter
pylori J99]
Length = 329
Score = 22.7 bits (47), Expect = 6.6
Identities = 18/79 (22%), Positives = 27/79 (33%)
Query: 1 MEFLVQKIGMSRTIDANSTPVTLLKVLQAKVCQLENGKALVAYAMHKKHNKAIEGQQKKY 60
M ++ K + I N V + A C L G +V K NK I + Y
Sbjct: 1 MNYIGSKYKLIPFIKENIHAVAGHDLSGAIFCDLFAGTGIVGRTFKKAVNKVISNDLEYY 60
Query: 61 QLSKEFNHFATLKASQQKE 79
N+ ++ KE
Sbjct: 61 SFVLNQNYIGNIQEIPNKE 79
>ref|NP_223747.1| ZINC-DEPENDENT ALCOHOL DEHYDROGENASE [Helicobacter pylori J99]
Length = 350
Score = 22.7 bits (47), Expect = 6.6
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 149 GHYGNELVTCQNEVLSFDKES 169
G Y N +V +N V+S DK +
Sbjct: 132 GGYSNNIVVDENYVISVDKNA 152
>ref|NP_223120.1| putative [Helicobacter pylori J99]
Length = 416
Score = 22.7 bits (47), Expect = 6.6
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 144 GRKMAGHYGNELVTCQNEVLSFDKESMVLVLKGSVAGFSGAY 185
G ++ GN + T N + S+D S L + G V Y
Sbjct: 173 GHQINKEQGNRIATSLNALASYDPVSKRLYVGGEVFVLGAEY 214
>ref|NP_223335.1| INTEGRASE-RECOMBINASE PROTEIN (XERCD FAMILY) [Helicobacter pylori
J99]
Length = 356
Score = 22.3 bits (46), Expect = 8.6
Identities = 9/31 (29%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 50 NKAIEGQQKKYQLSKEFNHFATLKASQQKEL 80
N ++ Q K ++ EFNH A++ ++Q +++
Sbjct: 32 NSQVKDQNKVFECLNEFNH-ASINSNQLEKV 61
>ref|NP_223277.1| putative chemotaxis protein [Helicobacter pylori J99]
Length = 313
Score = 22.3 bits (46), Expect = 8.6
Identities = 9/41 (21%), Positives = 21/41 (50%)
Query: 13 TIDANSTPVTLLKVLQAKVCQLENGKALVAYAMHKKHNKAI 53
++ A T +++ L+ + NG+ L+ Y K+H + +
Sbjct: 200 SLSALKTLEKIVQTLELRYLAFPNGRELLDYLYEKEHYQQV 240
Database: NC_000921.faa
Posted date: Dec 10, 2001 4:36 PM
Number of letters in database: 494,079
Number of sequences in database: 1491
Lambda K H
0.318 0.133 0.385
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 183,938
Number of Sequences: 1491
Number of extensions: 7463
Number of successful extensions: 27
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: 17
Number of HSP's gapped (non-prelim): 13
length of query: 191
length of database: 494,079
effective HSP length: 73
effective length of query: 118
effective length of database: 385,236
effective search space: 45457848
effective search space used: 45457848
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: 46 (22.3 bits)