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|15645541|ref|NP_207717.1| recombinational DNA repair
protein (recR) [Helicobacter pylori 26695]
(193 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223577.1| RECOMBINATION PROTEIN [Helicobacter pylori... 374 e-106
ref|NP_224022.1| putative [Helicobacter pylori J99] 30 0.055
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 26 0.79
ref|NP_223708.1| THIOL PEROXIDASE [Helicobacter pylori J99] 24 2.3
ref|NP_223135.1| putative [Helicobacter pylori J99] 24 2.3
ref|NP_223004.1| PERIPLASMIC DIPEPTIDE TRANSPORT SUBSTRATE-... 24 2.3
ref|NP_224178.1| Ubiquinol cytochrome c oxidoreductase, cyt... 24 3.0
ref|NP_222936.1| 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLYLTRANSF... 24 3.0
ref|NP_223990.1| putative [Helicobacter pylori J99] 23 3.9
ref|NP_223346.1| putative [Helicobacter pylori J99] 23 3.9
ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 23 5.1
ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99] 23 5.1
ref|NP_223045.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobact... 23 5.1
ref|NP_223571.1| CARBAMOYL-PHOSPHATE SYNTHASE LARGE CHAIN [... 23 6.7
ref|NP_222998.1| putative [Helicobacter pylori J99] 23 6.7
>ref|NP_223577.1| RECOMBINATION PROTEIN [Helicobacter pylori J99]
Length = 193
Score = 374 bits (960), Expect = e-106
Identities = 186/193 (96%), Positives = 189/193 (97%)
Query: 1 MNTYKNSLNHFLNLVDCLEKIPNVGKKSAFKMAYHLGLENPYLALKITHALENALENLKT 60
MNTYKNSLNHFLNLVDCLEKIPNVGKKSAFKMAYHLGLENPYLALKITHAL NALENLKT
Sbjct: 1 MNTYKNSLNHFLNLVDCLEKIPNVGKKSAFKMAYHLGLENPYLALKITHALRNALENLKT 60
Query: 61 CSSCNALSESEVCEICSDESRQNSQLCMVLHPRDVFILEDLKDFLGRYYVLNSIEEVDFN 120
C+SCNALSE+EV EICSDESRQNSQLCMVLHPRDVFILEDLKDFLGRYYVLNSIE+VDFN
Sbjct: 61 CASCNALSETEVSEICSDESRQNSQLCMVLHPRDVFILEDLKDFLGRYYVLNSIEDVDFN 120
Query: 121 ALEKRLIEENIKEIIFAFPPTLANDSLMLYIEDKLQHFHLTFTKIAQGVPTGVNFENIDS 180
ALEKRLI ENIKEIIFAFPPTLANDSLMLYIEDKLQH HLTFTKIAQGVPTGVNFENIDS
Sbjct: 121 ALEKRLIGENIKEIIFAFPPTLANDSLMLYIEDKLQHLHLTFTKIAQGVPTGVNFENIDS 180
Query: 181 VSLSRAFNSRIKA 193
VSLSRAFNSRIKA
Sbjct: 181 VSLSRAFNSRIKA 193
>ref|NP_224022.1| putative [Helicobacter pylori J99]
Length = 309
Score = 29.6 bits (65), Expect = 0.055
Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 7/94 (7%)
Query: 49 HALENALENLKTCSSCNALSESEVCEICSDESRQNSQLCMVLHPRDVFILEDLKDFLGRY 108
H ++ L+N S + +S E +QN++ L LE +DF+G
Sbjct: 183 HFMDRFLKNNAKASVKDFMSSKEFVNKYRYTPKQNTERAKKLQS----YLESKRDFIGFV 238
Query: 109 YVLNSIEEVDFNALEKRLIEENIKEIIFAFPPTL 142
LNS+++ + + L E I ++FA PT+
Sbjct: 239 QTLNSLKD---SPQDPFLPNEEISFLVFANEPTI 269
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 25.8 bits (55), Expect = 0.79
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 6 NSLNHFLNLVDCLEKIPNVGKK 27
NSL NL D L+KIPN+ KK
Sbjct: 653 NSLISRFNLNDDLKKIPNIKKK 674
>ref|NP_223708.1| THIOL PEROXIDASE [Helicobacter pylori J99]
Length = 166
Score = 24.3 bits (51), Expect = 2.3
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 93 RDVFILEDLKDFLGRYYVLNSIEEVDFNALEKRL 126
R VF+L+D + + V N +EE ++ AL K L
Sbjct: 132 RSVFVLDDKGVVIYKEIVQNILEEPNYEALLKVL 165
>ref|NP_223135.1| putative [Helicobacter pylori J99]
Length = 631
Score = 24.3 bits (51), Expect = 2.3
Identities = 12/21 (57%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 43 LALKITHALENALENLKT-CS 62
L LK THA+ N L+N +T CS
Sbjct: 113 LTLKATHAISNFLDNHQTPCS 133
>ref|NP_223004.1| PERIPLASMIC DIPEPTIDE TRANSPORT SUBSTRATE-BINDING PROTEIN
[Helicobacter pylori J99]
Length = 546
Score = 24.3 bits (51), Expect = 2.3
Identities = 19/48 (39%), Positives = 25/48 (51%), Gaps = 8/48 (16%)
Query: 12 LNLVDCLEKIPN-VGKKSAFKMAYHLGL-------ENPYLALKITHAL 51
LN V+ LEK+PN V +S +A L L NP + L I HA+
Sbjct: 284 LNEVEQLEKLPNIVVDRSPGLIANWLSLNTQKKYFNNPLVRLAINHAI 331
>ref|NP_224178.1| Ubiquinol cytochrome c oxidoreductase, cytochrome b subunit
[Helicobacter pylori J99]
Length = 412
Score = 23.9 bits (50), Expect = 3.0
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 115 EEVDFNALEKRLIEENIKE--IIFAFPPTLAND 145
EE+DF EK+ IE KE +I +P L+ D
Sbjct: 225 EEIDFELEEKKFIEGKKKESKVIPFWPVFLSKD 257
>ref|NP_222936.1| 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLYLTRANSFERASE [Helicobacter
pylori J99]
Length = 243
Score = 23.9 bits (50), Expect = 3.0
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 7 SLNHFLNLVDCLEKIPNVGKKSAFKMAYHLGLENPYLALKITHALENALENLKTCSSCNA 66
S +H CLE +G K+ ++ G + P+L K+ AL A +N ++C
Sbjct: 64 SKHHNSGTERCLEAAQILGLKNDERVLNLQG-DEPFLEKKVILALLEATQNAPFMATCAK 122
Query: 67 LSESE 71
+ + E
Sbjct: 123 VIDEE 127
>ref|NP_223990.1| putative [Helicobacter pylori J99]
Length = 1164
Score = 23.5 bits (49), Expect = 3.9
Identities = 14/49 (28%), Positives = 25/49 (50%), Gaps = 1/49 (2%)
Query: 101 LKDFLGRYYVLNSIEEVDFNALEKRLIEENIKEIIFAFPPTLANDSLML 149
L++ G YY +S+ E NAL+ L++ + K+ L N ++ L
Sbjct: 309 LREKKGVYYTPDSVVEFIINALDS-LLKTHFKDAPLGLKSALDNKNIKL 356
>ref|NP_223346.1| putative [Helicobacter pylori J99]
Length = 276
Score = 23.5 bits (49), Expect = 3.9
Identities = 12/28 (42%), Positives = 15/28 (52%)
Query: 101 LKDFLGRYYVLNSIEEVDFNALEKRLIE 128
L DFL ++ S V NALEK + E
Sbjct: 247 LNDFLAKFPKEKSYSSVFINALEKEIRE 274
>ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 363
Score = 23.1 bits (48), Expect = 5.1
Identities = 11/30 (36%), Positives = 18/30 (59%)
Query: 164 KIAQGVPTGVNFENIDSVSLSRAFNSRIKA 193
KIA+ +G NF+ + +S S F+ +I A
Sbjct: 134 KIAETDVSGANFDGNNKLSFSLFFDEKIDA 163
>ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99]
Length = 451
Score = 23.1 bits (48), Expect = 5.1
Identities = 17/68 (25%), Positives = 32/68 (47%)
Query: 88 MVLHPRDVFILEDLKDFLGRYYVLNSIEEVDFNALEKRLIEENIKEIIFAFPPTLANDSL 147
+VL + LE LK+ + L + + L+++LIE ++I+F P T+ +
Sbjct: 259 IVLANEENATLELLKERVKGQLFLENKARLYNEELKEKLIENLDEKILFDLPKTIIEQEM 318
Query: 148 MLYIEDKL 155
L + L
Sbjct: 319 DLLFRNAL 326
>ref|NP_223045.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobacter pylori J99]
Length = 343
Score = 23.1 bits (48), Expect = 5.1
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 13 NLVDCLEKIPNVGKKSAFKMAYHLGLENPYLALKITHALENALENL 58
N + L P+ K +LG +P + +++ LEN LE+L
Sbjct: 153 NAAETLSYFPDEMKAEISIRMANLGEISPQVVKRVSTVLENKLESL 198
>ref|NP_223571.1| CARBAMOYL-PHOSPHATE SYNTHASE LARGE CHAIN [Helicobacter pylori J99]
Length = 1085
Score = 22.7 bits (47), Expect = 6.7
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 95 VFILEDLKDFLGRYYVLNSIEEVDFNALEKRLIE-ENIKEIIFAFPPTLANDSLM 148
V +LEDLK+ L ++Y +I E + ++ +KE +F F +D ++
Sbjct: 869 VMVLEDLKEAL-KFYDKKNIVEYSKGVYKPKMPHFVALKEAVFPFNKLYGSDLIL 922
>ref|NP_222998.1| putative [Helicobacter pylori J99]
Length = 290
Score = 22.7 bits (47), Expect = 6.7
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 89 VLHPRDVFILEDLKDFLGRYYVLNSIEEV--DFNALEKR--LIEENIKEIIFAFPPTLAN 144
VL + LE D +G I+ V ++ +L+ + LI N + + F+F L
Sbjct: 162 VLEASKAWFLESQTDDIGLINENKGIQSVLENYESLDLKGGLIRVNGEIVSFSFGEVLNE 221
Query: 145 DSLMLYIE 152
+S +++IE
Sbjct: 222 ESALIHIE 229
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
0.320 0.136 0.390
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 212,642
Number of Sequences: 1491
Number of extensions: 9631
Number of successful extensions: 37
Number of sequences better than 10.0: 15
Number of HSP's better than 10.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 28
Number of HSP's gapped (non-prelim): 15
length of query: 193
length of database: 494,079
effective HSP length: 73
effective length of query: 120
effective length of database: 385,236
effective search space: 46228320
effective search space used: 46228320
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: 46 (22.3 bits)