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|15645953|ref|NP_208132.1| biopolymer transport
protein (exbD) [Helicobacter pylori 26695]
(129 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223977.1| BIOPOLYMER TRANSPORT EXBD PROTEIN [Helicob... 246 1e-67
ref|NP_224057.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter... 80 2e-17
ref|NP_223774.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter... 52 4e-09
ref|NP_224062.1| putative [Helicobacter pylori J99] 27 0.14
ref|NP_223286.1| AMINOTRANSFERASE [Helicobacter pylori J99] 27 0.14
ref|NP_223731.1| putative [Helicobacter pylori J99] 27 0.18
ref|NP_223282.1| inorganic pyrophosphatase [Helicobacter py... 27 0.24
ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SU... 26 0.41
ref|NP_223470.1| FLAGELLAR MOTOR PROTEIN [Helicobacter pylo... 26 0.41
ref|NP_223910.1| NADH oxidoreductase I [Helicobacter pylori... 24 1.6
ref|NP_223451.1| NEURAMINYLLACTOSE-BINDING HEMAGGLUTININ PR... 23 2.0
ref|NP_223612.1| GLYCYL-TRNA SYNTHETASE ALPHA CHAIN [Helico... 23 2.7
ref|NP_223564.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRA... 23 2.7
ref|NP_224191.1| PENICILLIN-BINDING PROTEIN [Helicobacter p... 22 5.9
ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter p... 22 5.9
ref|NP_222732.1| DNA PRIMASE [Helicobacter pylori J99] 22 5.9
ref|NP_223533.1| HOLLIDAY JUNCTION DNA HELICASE [Helicobact... 22 7.8
ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter p... 22 7.8
ref|NP_223397.1| PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE [H... 22 7.8
ref|NP_222899.1| Fumarate reductase [Helicobacter pylori J99] 22 7.8
>ref|NP_223977.1| BIOPOLYMER TRANSPORT EXBD PROTEIN [Helicobacter pylori J99]
Length = 129
Score = 246 bits (629), Expect = 1e-67
Identities = 128/129 (99%), Positives = 128/129 (99%)
Query: 1 MKSIRRGDGLNVVPFIDIMLVLLAIVLSISTFIAQGKIKVSLPNAKNAEKSQPNDQKVVV 60
MKSIRRGDGLNVVPFIDIMLVLLAIVLSISTFIAQGKIKVSLPNAKNAEKSQPNDQKVVV
Sbjct: 1 MKSIRRGDGLNVVPFIDIMLVLLAIVLSISTFIAQGKIKVSLPNAKNAEKSQPNDQKVVV 60
Query: 61 ISVDEHDNIFVDDKPMNLEALSAVVKQTDPKTLIDLKSDKSSRFETFISIMDILKEHNHE 120
ISVDEHDNIFVDDKP NLEALSAVVKQTDPKTLIDLKSDKSSRFETFISIMDILKEHNHE
Sbjct: 61 ISVDEHDNIFVDDKPTNLEALSAVVKQTDPKTLIDLKSDKSSRFETFISIMDILKEHNHE 120
Query: 121 NFSISTQAQ 129
NFSISTQAQ
Sbjct: 121 NFSISTQAQ 129
>ref|NP_224057.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 133
Score = 79.7 bits (195), Expect = 2e-17
Identities = 41/117 (35%), Positives = 70/117 (59%), Gaps = 2/117 (1%)
Query: 4 IRRGDGLNVVPFIDIMLVLLAIVLSISTFIAQGKIKVSLP--NAKNAEKSQPNDQKVVVI 61
+++ + +NVVPFIDIMLVLL IVL+ ++F+ K+ +S+P + + + D+K V I
Sbjct: 1 MKKVESMNVVPFIDIMLVLLVIVLTTASFVQTSKLPISIPQVDKDSTDSKDVLDKKQVTI 60
Query: 62 SVDEHDNIFVDDKPMNLEALSAVVKQTDPKTLIDLKSDKSSRFETFISIMDILKEHN 118
++ + + DDK ++ E L V T I L+ DK S + FI ++D+L+ +N
Sbjct: 61 AISNKGSFYFDDKEISFENLKHKVSTLAKDTPIVLQGDKKSNLDNFIKVVDLLQTNN 117
>ref|NP_223774.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 133
Score = 52.4 bits (124), Expect = 4e-09
Identities = 32/121 (26%), Positives = 65/121 (53%), Gaps = 7/121 (5%)
Query: 10 LNVVPFIDIMLVLLAIVLSISTFIAQGKIKVSLPNAKNAEKSQPNDQKVVVISVDEHDNI 69
LN+ P +D+MLVLLAI L ++T K +++LP+ ++ ++ KV+ I +D+ I
Sbjct: 14 LNITPLVDVMLVLLAI-LMVTTPTLTYKEEIALPS--GSKTARATQDKVIEIRMDKDAKI 70
Query: 70 FVDDKPMNL----EALSAVVKQTDPKTLIDLKSDKSSRFETFISIMDILKEHNHENFSIS 125
++D + + + + K+ D T + +++DK ++ I ++ +KE S+
Sbjct: 71 YIDSQTYEYNSFPDTFNLLSKKYDKDTRVSIRADKRLTYDKVIYLLKTIKEAGFLKVSLI 130
Query: 126 T 126
T
Sbjct: 131 T 131
>ref|NP_224062.1| putative [Helicobacter pylori J99]
Length = 258
Score = 27.3 bits (59), Expect = 0.14
Identities = 12/34 (35%), Positives = 22/34 (64%)
Query: 29 ISTFIAQGKIKVSLPNAKNAEKSQPNDQKVVVIS 62
+ T+IA K++ + PN + K+ ND+K +VI+
Sbjct: 220 VLTYIALKKLRKAFPNKYVSIKTNLNDEKYIVIN 253
>ref|NP_223286.1| AMINOTRANSFERASE [Helicobacter pylori J99]
Length = 375
Score = 27.3 bits (59), Expect = 0.14
Identities = 19/47 (40%), Positives = 24/47 (50%), Gaps = 2/47 (4%)
Query: 74 KPMNLEALSAVVKQTDPKTL-IDLKSDKSSRFETFISIMDILKEHNH 119
+P E L A+ K+ PK +DL + RFET I D LK H H
Sbjct: 4 EPYPFERLRALFKEITPKKKGLDLGIGEP-RFETPKFIQDALKSHTH 49
>ref|NP_223731.1| putative [Helicobacter pylori J99]
Length = 201
Score = 26.9 bits (58), Expect = 0.18
Identities = 19/74 (25%), Positives = 33/74 (43%), Gaps = 9/74 (12%)
Query: 46 KNAEKSQPNDQKVVVISVDEHDNIFVDDKPMNLEALSAVVKQTDPKTLIDLKSDKS---- 101
K + ND+K+ + + DN+ + D L++L + K D K L+ + +
Sbjct: 32 KEIQNLSENDEKIKLAKQAKQDNLAIGDLESRLKSLKGMDK--DAKELVGISKSYAHNNE 89
Query: 102 ---SRFETFISIMD 112
S FE F S +D
Sbjct: 90 KDRSDFERFKSRLD 103
>ref|NP_223282.1| inorganic pyrophosphatase [Helicobacter pylori J99]
Length = 173
Score = 26.6 bits (57), Expect = 0.24
Identities = 14/44 (31%), Positives = 22/44 (49%)
Query: 24 AIVLSISTFIAQGKIKVSLPNAKNAEKSQPNDQKVVVISVDEHD 67
A+VLS F A +K L N E D+K++ + +D+ D
Sbjct: 70 ALVLSDVAFQAGSVVKARLVGVLNMEDESGMDEKLLALPIDKID 113
Score = 21.6 bits (44), Expect = 7.8
Identities = 10/26 (38%), Positives = 12/26 (45%)
Query: 44 NAKNAEKSQPNDQKVVVISVDEHDNI 69
N E S D VVI + +H NI
Sbjct: 2 NLDQLEVSHDADSLCVVIEISKHSNI 27
>ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
pylori J99]
Length = 815
Score = 25.8 bits (55), Expect = 0.41
Identities = 14/39 (35%), Positives = 24/39 (60%)
Query: 48 AEKSQPNDQKVVVISVDEHDNIFVDDKPMNLEALSAVVK 86
A+ ++ ND K V+ SVD +DN + + ++ LS +VK
Sbjct: 82 AKIAERNDLKGVIDSVDFNDNTKLGEGKAMIDTLSNLVK 120
>ref|NP_223470.1| FLAGELLAR MOTOR PROTEIN [Helicobacter pylori J99]
Length = 257
Score = 25.8 bits (55), Expect = 0.41
Identities = 24/94 (25%), Positives = 39/94 (40%), Gaps = 9/94 (9%)
Query: 13 VPFIDIMLVLLAIVLSISTFIAQGKIKVSLPNAK-----NAEKSQPNDQKVVVISVDEHD 67
VP+ D + +LLA+ +++ A K KV + N Q VVVI D
Sbjct: 18 VPYADFLSLLLALFIALYAISAVNKSKVEALKTEFIKIFNYAPKPEAMQPVVVIPPDSGK 77
Query: 68 NIFVDDKPMNLEALSAVVKQTDPKTLIDLKSDKS 101
+++ M E+ + T+ K I K + S
Sbjct: 78 ----EEEQMASESSKPASQNTETKATIARKGEGS 107
>ref|NP_223910.1| NADH oxidoreductase I [Helicobacter pylori J99]
Length = 612
Score = 23.9 bits (50), Expect = 1.6
Identities = 13/41 (31%), Positives = 23/41 (55%)
Query: 12 VVPFIDIMLVLLAIVLSISTFIAQGKIKVSLPNAKNAEKSQ 52
V+P + LV LA+++SI+T + I ++ KN S+
Sbjct: 480 VIPSVGEYLVPLALLISITTIVVLLSIAYAIFKYKNGITSK 520
>ref|NP_223451.1| NEURAMINYLLACTOSE-BINDING HEMAGGLUTININ PRECURSOR [Helicobacter
pylori J99]
Length = 260
Score = 23.5 bits (49), Expect = 2.0
Identities = 27/106 (25%), Positives = 43/106 (40%), Gaps = 7/106 (6%)
Query: 13 VPFIDIMLVLLAIVLSISTFIA---QGKIKVSLPNAKNAEKSQPNDQKVVVISVDEHDNI 69
V +D ++LL S IA + K K + K E Q KV+ + + D+
Sbjct: 51 VQALDEKILLLRPAFQYSDNIAKEYENKFK-NQTTLKVEEILQNQGYKVINVDSSDKDDF 109
Query: 70 FVDDKPMNLEALSA---VVKQTDPKTLIDLKSDKSSRFETFISIMD 112
K A++ +V + DPK I KS+ F T + M+
Sbjct: 110 SFAQKKEGYLAVAMNGEIVLRPDPKRTIQKKSEPGLLFSTGLDKME 155
>ref|NP_223612.1| GLYCYL-TRNA SYNTHETASE ALPHA CHAIN [Helicobacter pylori J99]
Length = 298
Score = 23.1 bits (48), Expect = 2.7
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 43 PNAKNAEKSQPNDQKVVVISVDEHDNIFVDD 73
P+ N ++ +V+ I+++EHD FV+D
Sbjct: 84 PSPSNIQELYLKSLEVLGINLNEHDIRFVED 114
>ref|NP_223564.1| TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE) [Helicobacter
pylori J99]
Length = 381
Score = 23.1 bits (48), Expect = 2.7
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 57 KVVVISVDEHDNIFVDDKPMNLEALSAVVKQTD 89
KV V +V D IF ++ NLE ++++ K+T+
Sbjct: 222 KVKVGAVSGCDKIFKNETYGNLEFVTSITKRTN 254
>ref|NP_224191.1| PENICILLIN-BINDING PROTEIN [Helicobacter pylori J99]
Length = 588
Score = 21.9 bits (45), Expect = 5.9
Identities = 9/27 (33%), Positives = 16/27 (58%)
Query: 92 TLIDLKSDKSSRFETFISIMDILKEHN 118
+L DLK D+ +++ + I KE+N
Sbjct: 170 SLQDLKDDEENQYSQIVGKTGIEKEYN 196
>ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter pylori J99]
Length = 623
Score = 21.9 bits (45), Expect = 5.9
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 36 GKIKVSLPNAKNAEKSQPNDQKVVVISVDEHDNIFVDDKPMNLEALSAVVKQTDPKTLID 95
GKI + KN +K Q N QK++ + +N+ + N+ L + P + D
Sbjct: 120 GKISLIFKKVKNHKKIQENLQKLLSL-----ENLKKEGVKENVARLLLEIFFPTPHFVKD 174
Query: 96 LKSDKS 101
+++K+
Sbjct: 175 FETNKN 180
>ref|NP_222732.1| DNA PRIMASE [Helicobacter pylori J99]
Length = 559
Score = 21.9 bits (45), Expect = 5.9
Identities = 9/33 (27%), Positives = 19/33 (57%)
Query: 84 VVKQTDPKTLIDLKSDKSSRFETFISIMDILKE 116
++K+ DP+ L+ DK+ R + + + + KE
Sbjct: 283 LLKKGDPEILLSYDGDKAGRNAAYKASLMLAKE 315
>ref|NP_223533.1| HOLLIDAY JUNCTION DNA HELICASE [Helicobacter pylori J99]
Length = 183
Score = 21.6 bits (44), Expect = 7.8
Identities = 12/55 (21%), Positives = 27/55 (48%), Gaps = 6/55 (10%)
Query: 62 SVDEHDNIFVDDKPMNLEALSAVVKQTDPKTLIDL------KSDKSSRFETFISI 110
S +E +NI + L+ + + K+ K ++DL ++ +R E F+++
Sbjct: 93 SPNEFENIIATKEVKRLQQVPGIGKKLADKIMVDLIGFFIQDENRPARNEVFLAL 147
>ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter pylori J99]
Length = 594
Score = 21.6 bits (44), Expect = 7.8
Identities = 11/35 (31%), Positives = 21/35 (59%)
Query: 67 DNIFVDDKPMNLEALSAVVKQTDPKTLIDLKSDKS 101
+ I V+++ L ++++KQ PK I L+ DK+
Sbjct: 72 ETILVENEQDALILENSLIKQLKPKYNILLRDDKT 106
>ref|NP_223397.1| PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE [Helicobacter pylori J99]
Length = 318
Score = 21.6 bits (44), Expect = 7.8
Identities = 10/28 (35%), Positives = 15/28 (52%)
Query: 46 KNAEKSQPNDQKVVVISVDEHDNIFVDD 73
K EK+ ++ ++ S E D I VDD
Sbjct: 201 KRREKANESEVMNIIGSAKERDVILVDD 228
>ref|NP_222899.1| Fumarate reductase [Helicobacter pylori J99]
Length = 714
Score = 21.6 bits (44), Expect = 7.8
Identities = 14/32 (43%), Positives = 20/32 (61%), Gaps = 1/32 (3%)
Query: 18 IMLVLLAIVLSISTFIAQGKIKVSLPNAKNAE 49
I+L L+ + S S AQG ++ SL NAK +E
Sbjct: 32 IVLSLVPVRRSHSA-AAQGGMQASLANAKKSE 62
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
0.317 0.133 0.352
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 116,822
Number of Sequences: 1491
Number of extensions: 4279
Number of successful extensions: 31
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 11
Number of HSP's gapped (non-prelim): 21
length of query: 129
length of database: 494,079
effective HSP length: 68
effective length of query: 61
effective length of database: 392,691
effective search space: 23954151
effective search space used: 23954151
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 44 (21.6 bits)