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|15645744|ref|NP_207921.1| biopolymer transport
protein (exbB) [Helicobacter pylori 26695]
(189 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223775.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter... 358 e-101
ref|NP_224056.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter... 53 4e-09
ref|NP_223976.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter... 53 6e-09
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 29 0.069
ref|NP_223574.1| putative vacuolating cytotoxin (VacA) para... 28 0.20
ref|NP_223469.1| putative CHEMOTAXIS PROTEIN (MOTILITY PROT... 27 0.34
ref|NP_223018.1| putative [Helicobacter pylori J99] 24 2.2
ref|NP_223861.1| D-LACTATE DEHYDROGENASE [Helicobacter pylo... 23 3.8
ref|NP_223885.1| 30S RIBOSOMAL PROTEIN S6 [Helicobacter pyl... 23 5.0
ref|NP_223398.1| putative ROD SHAPE-DETERMINING PROTEIN [He... 23 5.0
ref|NP_223160.1| PUTATIVE POTASSIUM CHANNEL PROTEIN [Helico... 23 5.0
ref|NP_222881.1| putative [Helicobacter pylori J99] 23 5.0
ref|NP_222958.1| putative Outer membrane protein [Helicobac... 23 6.5
ref|NP_222856.1| Cytochrome oxidase (CBB3-TYPE) [Helicobact... 22 8.5
>ref|NP_223775.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 189
Score = 358 bits (919), Expect = e-101
Identities = 185/189 (97%), Positives = 186/189 (97%)
Query: 1 MLDSIVYFFNKSGFVTTLVLVWISLYLVMTLWVFLYKSIALKIELKREMQSLSNILNGAQ 60
M DSIVYFFNKSGFVTTLVLVWISLYLVMTLWVFLYKSI LKIEL+REMQSLSNILNGAQ
Sbjct: 1 MFDSIVYFFNKSGFVTTLVLVWISLYLVMTLWVFLYKSIVLKIELRREMQSLSNILNGAQ 60
Query: 61 DAPEHFMFNKKRNDETKRYSNELLQAWKHQVLKQSTTGLVVLSIISSTAPFIGLFGTVVE 120
DAPEHFMFNKKRNDETKRYSNELLQAWKHQVLKQSTTGLVVLSIISSTAPFIGLFGTVVE
Sbjct: 61 DAPEHFMFNKKRNDETKRYSNELLQAWKHQVLKQSTTGLVVLSIISSTAPFIGLFGTVVE 120
Query: 121 ILEAFNNLGTLGQASFGVIAPIISKALIATAAGILAAIPAYSFYLILKRKVYDLSVYVQM 180
ILEAFNNLG LGQASFGVIAPIISKALIATAAGILAAIPAYSFYLILKRKVYDLSVYVQM
Sbjct: 121 ILEAFNNLGALGQASFGVIAPIISKALIATAAGILAAIPAYSFYLILKRKVYDLSVYVQM 180
Query: 181 QVDILSSKK 189
QVDILSSKK
Sbjct: 181 QVDILSSKK 189
>ref|NP_224056.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 150
Score = 53.1 bits (126), Expect = 4e-09
Identities = 30/72 (41%), Positives = 42/72 (57%)
Query: 99 LVVLSIISSTAPFIGLFGTVVEILEAFNNLGTLGQASFGVIAPIISKALIATAAGILAAI 158
L +++ I S AP+IGL GTV+ I+ F +LG+ I ++ AL AT G+L AI
Sbjct: 53 LTLVATIGSNAPYIGLLGTVMGIMLTFMDLGSASGIDTKAIMTNLALALKATGMGLLVAI 112
Query: 159 PAYSFYLILKRK 170
PA Y +L RK
Sbjct: 113 PAIVIYNLLVRK 124
>ref|NP_223976.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 145
Score = 52.8 bits (125), Expect = 6e-09
Identities = 31/75 (41%), Positives = 41/75 (54%)
Query: 96 TTGLVVLSIISSTAPFIGLFGTVVEILEAFNNLGTLGQASFGVIAPIISKALIATAAGIL 155
T L +L +I S AP++GL GTV+ I+ F ++G G I +S AL ATA G+
Sbjct: 58 TKNLTILYVIFSNAPYVGLLGTVLGIMVIFYDMGVSGGMDAKTIMVGLSLALKATALGLA 117
Query: 156 AAIPAYSFYLILKRK 170
AIP Y L RK
Sbjct: 118 VAIPTLIAYNSLLRK 132
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 29.3 bits (64), Expect = 0.069
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 115 FGTVVEILEAFNNLGTLGQAS--FGVIAPIISKALIATAAGILAAIPAYSFYL 165
F + F+N G + Q S FG+ P+I++A + +A ++ Y+FY+
Sbjct: 1179 FAEFKRFAKKFHNQGVISQKSVEFGIKVPLINQAYLNSAGADVSYRRLYTFYI 1231
>ref|NP_223574.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 2399
Score = 27.7 bits (60), Expect = 0.20
Identities = 33/120 (27%), Positives = 47/120 (38%), Gaps = 23/120 (19%)
Query: 50 QSLSNILNGAQDAPEHFMFN---------KKRNDETKRYSNELLQAWKHQVLKQSTTGLV 100
Q+ NI NG+Q A FN K N + +SN VL + T +
Sbjct: 926 QASLNIYNGSQAAFSSLFFNGGTLSLNANSKLNASSASFSNNTTINLDDSVLNANNTSSL 985
Query: 101 VLSII---SSTAPFIGLFGTVVEILEA---------FNNLGTLGQASFGVIAPIISKALI 148
+I +S A F G T ++ FNNL G +F AP ++KAL+
Sbjct: 986 NANINFQGASQADFGG--NTTIDTASFNFDSASSLNFNNLTANGALNFNGYAPSLTKALM 1043
>ref|NP_223469.1| putative CHEMOTAXIS PROTEIN (MOTILITY PROTEIN A) [Helicobacter
pylori J99]
Length = 257
Score = 26.9 bits (58), Expect = 0.34
Identities = 21/68 (30%), Positives = 32/68 (46%), Gaps = 6/68 (8%)
Query: 108 TAPFIGLFGTVVEILEAFNNLGTLGQASFGVIAPIISKALIATAAGILAAIPAYS-FYLI 166
TAP +GL G V+ ++ A L + + G I+ A AT GI+ + + F
Sbjct: 152 TAPTMGLVGAVMGLMLALQKLDNPAEMAAG-----IAGAFTATVTGIMCSYAIFGPFGHK 206
Query: 167 LKRKVYDL 174
LK K D+
Sbjct: 207 LKAKSKDI 214
>ref|NP_223018.1| putative [Helicobacter pylori J99]
Length = 381
Score = 24.3 bits (51), Expect = 2.2
Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 4/24 (16%)
Query: 12 SGFVTTLVLVWISLYLVMTLWVFL 35
SGFV L WIS Y + W+FL
Sbjct: 143 SGFV----LPWISSYNIKWAWIFL 162
>ref|NP_223861.1| D-LACTATE DEHYDROGENASE [Helicobacter pylori J99]
Length = 946
Score = 23.5 bits (49), Expect = 3.8
Identities = 11/19 (57%), Positives = 15/19 (78%), Gaps = 3/19 (15%)
Query: 170 KVYDLSVYVQMQVDILSSK 188
KVYDLSVY++ ++LS K
Sbjct: 819 KVYDLSVYIE---EVLSPK 834
>ref|NP_223885.1| 30S RIBOSOMAL PROTEIN S6 [Helicobacter pylori J99]
Length = 142
Score = 23.1 bits (48), Expect = 5.0
Identities = 10/44 (22%), Positives = 22/44 (49%)
Query: 39 IALKIELKREMQSLSNILNGAQDAPEHFMFNKKRNDETKRYSNE 82
I +K E K+E+++ +++ A P H ++ + T + E
Sbjct: 89 IVIKYESKKEVEAWHALVDRANKKPSHAKEKHEKTEHTHSHHAE 132
>ref|NP_223398.1| putative ROD SHAPE-DETERMINING PROTEIN [Helicobacter pylori J99]
Length = 381
Score = 23.1 bits (48), Expect = 5.0
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 7 YFFNKSGFVTTLVLVWISLYLVMTLWVFLYKS 38
YF + GF+ ++L I + L + L+ +L++S
Sbjct: 258 YFVERFGFLGAILLFAIYIGLSLHLFFYLFES 289
>ref|NP_223160.1| PUTATIVE POTASSIUM CHANNEL PROTEIN [Helicobacter pylori J99]
Length = 378
Score = 23.1 bits (48), Expect = 5.0
Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 11/98 (11%)
Query: 68 FNKKRNDETKRYSNELLQAWKHQVLKQSTTGLVVLSIISSTAPFIGLFGTVVEILEAF-- 125
F K++DE + N + ++ + + L+ L ++ T + L +++AF
Sbjct: 8 FKIKKDDENQPEVNLNSEIYEQFKVFRLPLILIQLLVLLGTLGYFALEN--YSLMQAFFQ 65
Query: 126 -------NNLGTLGQASFGVIAPIISKALIATAAGILA 156
G L ++ FG I+ ++ L+ GI+A
Sbjct: 66 TTYTMTATGFGALNESQFGPISIFLTSILMFCGTGIIA 103
>ref|NP_222881.1| putative [Helicobacter pylori J99]
Length = 242
Score = 23.1 bits (48), Expect = 5.0
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 92 LKQSTTGLVVLSIISST--APFIGLFGTVVEILEAF 125
LK T L+ L++++ PFIG+FG I+ F
Sbjct: 135 LKSLTFMLLFLAVLTPLYFIPFIGVFGVFFSIVPHF 170
>ref|NP_222958.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 479
Score = 22.7 bits (47), Expect = 6.5
Identities = 17/61 (27%), Positives = 26/61 (41%), Gaps = 1/61 (1%)
Query: 106 SSTAPFIGLFGTVVEILEAFNNLGTLGQA-SFGVIAPIISKALIATAAGILAAIPAYSFY 164
SS+ F+ G + N L Q FGV P+I+ AT + + +SFY
Sbjct: 413 SSSFQFLFDLGVRTNFAKTNFNKHRLDQGIEFGVKIPVIAHKYFATQGSSASYMRNFSFY 472
Query: 165 L 165
+
Sbjct: 473 V 473
>ref|NP_222856.1| Cytochrome oxidase (CBB3-TYPE) [Helicobacter pylori J99]
Length = 292
Score = 22.3 bits (46), Expect = 8.5
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 20/76 (26%)
Query: 14 FVTTLVLVWISLYLVMTLWVFLYKSIALKIELKREMQSLSNILNGAQDAPEHFMFNKKRN 73
F + + WI+ ++ + +W F Y + S S I + N
Sbjct: 56 FANNVPVGWIASFMCVIVWAFWYFFFGY------PLSSFSQI--------------GQYN 95
Query: 74 DETKRYSNELLQAWKH 89
+E K ++ + WKH
Sbjct: 96 EEVKAHNQKFEAKWKH 111
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
0.324 0.137 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: 178,352
Number of Sequences: 1491
Number of extensions: 6986
Number of successful extensions: 39
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 26
Number of HSP's gapped (non-prelim): 15
length of query: 189
length of database: 494,079
effective HSP length: 73
effective length of query: 116
effective length of database: 385,236
effective search space: 44687376
effective search space used: 44687376
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 46 (22.3 bits)