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|15644928|ref|NP_207098.1| dipeptide ABC transporter,
permease protein (dppC) [Helicobacter pylori 26695]
(285 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_222957.1| ABC transporter, permease [Helicobacter py... 115 1e-27
ref|NP_223475.1| putative osmoprotection binding protein [H... 46 1e-06
ref|NP_223005.1| DIPEPTIDE TRANSPORT SYSTEM PERMEASE PROTEI... 36 0.001
ref|NP_223814.1| AMINO ACID ABC TRANSPORTER, PERMEASE PROTE... 35 0.002
ref|NP_223472.1| putative osmoprotection binding protein [H... 33 0.011
ref|NP_223163.1| PHOSPHO-N-ACETYLMURAMOYL-PENTAPEPTIDE-TRAN... 26 1.0
ref|NP_223167.1| putative transporter [Helicobacter pylori ... 26 1.4
ref|NP_224114.1| putative component of cation transport for... 24 3.9
ref|NP_224032.1| FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobact... 24 3.9
ref|NP_223812.1| putative [Helicobacter pylori J99] 24 3.9
ref|NP_222849.1| L-lactate permease [Helicobacter pylori J99] 24 3.9
ref|NP_223910.1| NADH oxidoreductase I [Helicobacter pylori... 23 6.7
ref|NP_223592.1| putative AMINO ACID ABC TRANSPORTER, PERME... 23 6.7
ref|NP_222769.1| sodium/proline symporter [Helicobacter pyl... 23 6.7
ref|NP_223967.1| CATION EFFLUX SYSTEM PROTEIN [Helicobacter... 23 8.8
ref|NP_222880.1| FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobact... 23 8.8
>ref|NP_222957.1| ABC transporter, permease [Helicobacter pylori J99]
Length = 338
Score = 115 bits (289), Expect = 1e-27
Identities = 83/330 (25%), Positives = 143/330 (43%), Gaps = 54/330 (16%)
Query: 4 FREFIQQFKKNKAAVVGAWIVLLLVICAIFAPLLAP------------------------ 39
F+ I FKKNK AV ++ + L+ ++ APL
Sbjct: 5 FKMRILSFKKNKRAVFSLYLFIALLALSLLAPLWVNDRPLFIYKDNKAYFPMFKNYAEVE 64
Query: 40 -----------HDPYVQN---------------AQDRLLKPIWEHGGNA---KYLLGTDD 70
+DPYVQN + D ++ + K+LLGTDD
Sbjct: 65 FGGDFFTPTDYNDPYVQNTLLKDAFIIHALIPYSYDTIIMDLDSPAPTPPSFKHLLGTDD 124
Query: 71 LGRDILSRLIYGARISLTIGIVSMGIAVFFGTILGLIAGYFGGKTDAIIMRIMDIMFALP 130
RD+L+RL+YG R+SL GI+ +V G LG GY+GG D + R+ +I A+P
Sbjct: 125 QARDVLARLVYGYRVSLVFGILLTLFSVLIGVSLGAFQGYYGGLVDLVGQRLSEIWSAIP 184
Query: 131 SILLIVIVVAVLGPSLTNAMLAIGFVGIPGFARLVRSSVLGEKEKEYVIASKINGSSHLR 190
+ L++++ + + + + G +++VR+ L + +Y A++ G + L+
Sbjct: 185 MLFLLIVISSAFNSNFWIILFLVLLFSWMGLSQVVRTEFLKARNMDYTKAARALGVNDLK 244
Query: 191 LMCKVIFPNCIIPLIVQTTMGFASTVLEAAALSFLGLGAQPPKPEWGAMLMNSMQYIATA 250
++ + PN ++ I A+++ +L FLG G G L+N + T
Sbjct: 245 IIFYHVLPNALVATITYIPFLMAASISTLVSLDFLGFGMPIGSASLGE-LVNQGKDNLTT 303
Query: 251 PWMLVFPGVMIFLTVMSFNLVGDGIMDALD 280
P + V V I L + +G+G+ DA +
Sbjct: 304 PHLAVVAFVAISLLLSVLVFIGEGVRDAFN 333
>ref|NP_223475.1| putative osmoprotection binding protein [Helicobacter pylori J99]
Length = 553
Score = 46.2 bits (108), Expect = 1e-06
Identities = 34/135 (25%), Positives = 66/135 (48%), Gaps = 6/135 (4%)
Query: 96 IAVFFGTILGLIAGYFGGKTDAIIMRIMDIMFALPSILLIVIVVAVLGPSLTNAMLAIGF 155
I + FG ++G+ ++ K A ++ +++ ++ +PS+ L + + V+G L NA+L +
Sbjct: 70 IVLVFGVLIGVFV-FYNSKARAFLLPVVNFLYTIPSLALFALFIPVIGVGLKNALLVLVL 128
Query: 156 VGIPGFARLVRSSVLGEKE-KEYVIASKIN-GSSHLRLMCKVIFPNCIIPLIVQTTMGFA 213
G+ +V S+ KE +E VI + I G + L +V F I ++V +
Sbjct: 129 YGL---LPIVHSTYNALKEAREEVIKAAIGLGCNPKELFFRVRFLLAIPQILVGLRIAVV 185
Query: 214 STVLEAAALSFLGLG 228
V A + +G G
Sbjct: 186 MLVAMAGIGALIGAG 200
>ref|NP_223005.1| DIPEPTIDE TRANSPORT SYSTEM PERMEASE PROTEIN [Helicobacter pylori
J99]
Length = 334
Score = 35.8 bits (81), Expect = 0.001
Identities = 42/177 (23%), Positives = 70/177 (38%), Gaps = 32/177 (18%)
Query: 106 LIAGYFGGKTDAIIMRIMDIMFALPSILLIVIVVAVLGPSLTNAMLAIGFVGIPGFARLV 165
LIAG +G D I I LPSI+L + AV+ AR+
Sbjct: 186 LIAGDYGAFVDTIKHLI------LPSIVLATVSTAVI-------------------ARMT 220
Query: 166 RSSVLGEKEKEYVIASKINGSSHLRLMCKVIFPNCIIPLIVQTTMGFASTVLEAAALSFL 225
R+S+ +++YV +K G S R++ N +IP V T G L ++
Sbjct: 221 RASMAEVSKEDYVRTAKAKGCSSFRVIFVHTLRNALIP--VTTIAGLMLAGLLGGSMITE 278
Query: 226 GLGAQPPKPEWGAMLMNSMQYIATAPWMLVFPGVMIFLTVMSFNLVGDGIMDALDPK 282
+ + P +W +N + L+ I + + NL+ D + +DP+
Sbjct: 279 TVFSWPGIGKWIVNALNQRDFPIIQSMSLI-----IAMMYIGANLLVDVLYAFIDPR 330
>ref|NP_223814.1| AMINO ACID ABC TRANSPORTER, PERMEASE PROTEIN [Helicobacter pylori
J99]
Length = 223
Score = 35.4 bits (80), Expect = 0.002
Identities = 36/160 (22%), Positives = 70/160 (43%), Gaps = 8/160 (5%)
Query: 74 DILSRLIYGARISLTIGIVSMGIAVFFGTILGLIAGYFGGKTDAIIMRI-MDIMFALPSI 132
D L RL+ G +L I + S I++ G +LG + FG K + R+ ++ + +P +
Sbjct: 8 DNLKRLLEGFETTLLIALSSAIISIVVGMLLGSLMA-FGSKIMVLACRVYLESIRIIPLL 66
Query: 133 LLIVIVVAVLGP----SLTNAMLAIGFVGIPGFARL--VRSSVLGEKEKEYVIASKINGS 186
+ IV L ++ + ++ + G A + + VL K V ++ G
Sbjct: 67 AWLFIVYFGLASWFDLHISAVLASVIVFSLWGGAEMMDLTRGVLTSVSKHQVESALALGL 126
Query: 187 SHLRLMCKVIFPNCIIPLIVQTTMGFASTVLEAAALSFLG 226
+++ VIFP + L+ + F + A +S +G
Sbjct: 127 DSKKVIFNVIFPQSFLSLLPSSLNLFTRMIKTTALVSLIG 166
>ref|NP_223472.1| putative osmoprotection binding protein [Helicobacter pylori J99]
Length = 161
Score = 32.7 bits (73), Expect = 0.011
Identities = 11/48 (22%), Positives = 29/48 (59%), Gaps = 1/48 (2%)
Query: 96 IAVFFGTILGLIAGYFGGKTDAIIMRIMDIMFALPSILLIVIVVAVLG 143
I + FG ++G+ ++ K A ++ +++ ++ +PS+ L + + V+G
Sbjct: 70 IVLVFGVLIGVFV-FYNSKARAFLLPVVNFLYTIPSLALFALFIPVIG 116
>ref|NP_223163.1| PHOSPHO-N-ACETYLMURAMOYL-PENTAPEPTIDE-TRANSFERASE [Helicobacter
pylori J99]
Length = 353
Score = 26.2 bits (56), Expect = 1.0
Identities = 31/120 (25%), Positives = 52/120 (42%), Gaps = 21/120 (17%)
Query: 137 IVVAVLGPSLTNAMLAIGFVGIPGFARLVRSSVLGEKEKEYVIASKINGSSHLRLMCKVI 196
IV +VL SL+N + +G + + GF S +G ++ +Y +KIN ++ + K+
Sbjct: 79 IVASVLCASLSNLYVLLGIIVLVGF------SFVGFRD-DY---TKINQQNNAGMSAKMK 128
Query: 197 FPNCIIPLIVQTTMGFASTVLEAAALSFLGLGAQPPKPEWGAMLMNSMQYIATAPWMLVF 256
F M F +++ + LS GL P L +A W+LVF
Sbjct: 129 F-----------GMLFILSLIVSVLLSLKGLDTFLYAPFLKNPLFEMPTMLAVGFWVLVF 177
>ref|NP_223167.1| putative transporter [Helicobacter pylori J99]
Length = 442
Score = 25.8 bits (55), Expect = 1.4
Identities = 16/56 (28%), Positives = 26/56 (45%), Gaps = 9/56 (16%)
Query: 81 YGARISLTIGIVSMGIAVFFG---------TILGLIAGYFGGKTDAIIMRIMDIMF 127
YGA +S G++ + V FG +IL L+A F G T + + +M+
Sbjct: 271 YGANVSQGTGLIFTSLPVVFGQMGAIGVLVSILFLLALAFAGITSTVALLEPSVMY 326
>ref|NP_224114.1| putative component of cation transport for cbb3-type oxidase
[Helicobacter pylori J99]
Length = 788
Score = 24.3 bits (51), Expect = 3.9
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 111 FGGKTDAIIMRIMDIMFALPSILLIVIV 138
+GG D ++ R +D++ S+L++V+V
Sbjct: 200 YGGGMDKLMQRNLDLVSLFLSLLVLVVV 227
>ref|NP_224032.1| FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 88
Score = 24.3 bits (51), Expect = 3.9
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 101 GTILGLIAGYFGGKTDAIIMRIMDIMFALPSILLIVIVVAVLGPSLTNAML 151
G ++GL+ F T + M + F +P IL ++ V+ + P +TN +L
Sbjct: 27 GLVVGLLVSIFQATTQ---INEMTLSF-VPKILAVIGVLILTMPWMTNMLL 73
>ref|NP_223812.1| putative [Helicobacter pylori J99]
Length = 687
Score = 24.3 bits (51), Expect = 3.9
Identities = 44/198 (22%), Positives = 81/198 (40%), Gaps = 22/198 (11%)
Query: 89 IGIVSMGIAVFFGTILGL---IAGYFGGKTDAIIMRIMDIMFALPSILLIVIVVAVLGP- 144
IG + + IA++ G + L +A F + ++ IM F + I+ V +L P
Sbjct: 224 IGFILLIIAIYAGKYVSLDPKLASIFTFEAGSLAWMIMGYGF----VASILPVWFLLAPR 279
Query: 145 SLTNAMLAIGFVGIPGFARLVRSSVLGEKEKEYVIASKINGSSHLRLMCKVIFPNCIIPL 204
+ L IG +G+ A + + L + I ++GS + +FP I +
Sbjct: 280 DYLSTFLKIGVIGVLVVAIVFVAPPLQIPK----ITPFVDGSGPV--FAGSVFPFLFITV 333
Query: 205 IVQTTMGFASTVLEAAALSFLGLGAQPPKPEWGAMLMNSMQYIATAPWMLVFPGVM---I 261
T GF + + L + +G+M+M S+ A LV G++ +
Sbjct: 334 ACGTISGFHALISSGTTPKMLAKESDARLVGYGSMVMESV----VALMALVCAGILHPGL 389
Query: 262 FLTVMSFNL-VGDGIMDA 278
+ + S + +G I DA
Sbjct: 390 YFAINSPEVSIGKDIADA 407
>ref|NP_222849.1| L-lactate permease [Helicobacter pylori J99]
Length = 549
Score = 24.3 bits (51), Expect = 3.9
Identities = 33/156 (21%), Positives = 64/156 (40%), Gaps = 10/156 (6%)
Query: 20 GAWIVLLLVICAIFAPLLAPHDPYVQNAQDRLLKPIWEHGGNAKYLLGTDDLGRDILSRL 79
G W + +VI AIF L+ Y + ++ +L +H +L G + +
Sbjct: 75 GLWPIAWIVIAAIFLYNLSVKSGYFEILKESILSLTPDH--RILVILIGFCFGSFLEGAI 132
Query: 80 IYGARISLTIGI-VSMGIAVFFGTILGLIAGYFGGKTDAIIMRIMDIMFALPSILLIVIV 138
+G +++T I V +G+ + L LIA T + + I + ++ +V +
Sbjct: 133 GFGGPVAITAAILVGLGLNPLYAAGLCLIA-----NTAPVAFGAVGI--PITAMASVVGI 185
Query: 139 VAVLGPSLTNAMLAIGFVGIPGFARLVRSSVLGEKE 174
+ + +L I +GIP F + G +E
Sbjct: 186 PELEISQMVGRVLPIFSIGIPFFIVFLMDGFRGIRE 221
>ref|NP_223910.1| NADH oxidoreductase I [Helicobacter pylori J99]
Length = 612
Score = 23.5 bits (49), Expect = 6.7
Identities = 11/45 (24%), Positives = 23/45 (50%)
Query: 94 MGIAVFFGTILGLIAGYFGGKTDAIIMRIMDIMFALPSILLIVIV 138
+ + +F I + AG FG K A+ + + + + L S + V++
Sbjct: 7 LSVVLFLPLIGAVYAGLFGAKAKALHVGVFNSLCVLVSFIGAVVL 51
>ref|NP_223592.1| putative AMINO ACID ABC TRANSPORTER, PERMEASE PROTEIN [Helicobacter
pylori J99]
Length = 237
Score = 23.5 bits (49), Expect = 6.7
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 212 FASTVLEAAALSFLGLGAQPPKPEWGAMLMNSMQYIATAPWMLVF 256
+AS L A+ LS PK +W + L + Y+ T W ++F
Sbjct: 124 YASETLRASFLSV-------PKDQWDSSLSLGLNYLQTF-WHVIF 160
>ref|NP_222769.1| sodium/proline symporter [Helicobacter pylori J99]
Length = 496
Score = 23.5 bits (49), Expect = 6.7
Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 11/88 (12%)
Query: 88 TIGIVSMGIAVFFGTILGLIAGYFGGKTDAIIMRIMDIMFALPSILLIVIVVAVLGPSLT 147
TIGI M I++ ++GL+ + K D+ P + IV+ + P +T
Sbjct: 275 TIGISWMVISLIGACVMGLLGVAYVHK--------FDLSLEDPEKIFIVMSQLLFNPWIT 326
Query: 148 NAMLAIGFVGIPGFAR---LVRSSVLGE 172
+L+ + A LV SS + E
Sbjct: 327 GILLSAILAAVMSTASSQLLVSSSTIAE 354
>ref|NP_223967.1| CATION EFFLUX SYSTEM PROTEIN [Helicobacter pylori J99]
Length = 1035
Score = 23.1 bits (48), Expect = 8.8
Identities = 12/31 (38%), Positives = 18/31 (57%), Gaps = 2/31 (6%)
Query: 240 LMNSMQYIATAPWMLVFPGVMIFLTVMSFNL 270
L NS+ T P+ F G +IF+ +M FN+
Sbjct: 882 LTNSLLCFFTLPF--AFLGGLIFMNLMGFNM 910
>ref|NP_222880.1| FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 255
Score = 23.1 bits (48), Expect = 8.8
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 4/33 (12%)
Query: 151 LAIGFVGIPGFARLVRSSVLGEKEKEYVIASKI 183
+AIGFVGI L+ S+++G ++E +A +
Sbjct: 222 IAIGFVGI----ILIASAIMGRFKEEISLAFSV 250
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
0.328 0.144 0.430
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 256,416
Number of Sequences: 1491
Number of extensions: 10320
Number of successful extensions: 56
Number of sequences better than 10.0: 16
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 45
Number of HSP's gapped (non-prelim): 19
length of query: 285
length of database: 494,079
effective HSP length: 77
effective length of query: 208
effective length of database: 379,272
effective search space: 78888576
effective search space used: 78888576
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)