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|15646053|ref|NP_208235.1| small protein (smpB)
[Helicobacter pylori 26695]
(152 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_224055.1| putative [Helicobacter pylori J99] 296 2e-82
ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter p... 26 0.42
ref|NP_223366.1| putative [Helicobacter pylori J99] 26 0.42
ref|NP_223810.1| glucose-6-phosphate isomerase [Helicobacte... 26 0.55
ref|NP_223170.1| DNA POLYMERASE III, BETA CHAIN [Helicobact... 25 0.94
ref|NP_223963.1| FUMARASE [Helicobacter pylori J99] 24 1.6
ref|NP_223562.1| putative FLAGELLAR BASAL-BODY/ROD/HOOKPROT... 24 2.1
ref|NP_222964.1| EXODEOXYRIBONUCLEASE LARGE SUBUNIT [Helico... 23 2.7
ref|NP_223258.1| putative [Helicobacter pylori J99] 23 3.6
ref|NP_223636.1| DNA transfer protein [Helicobacter pylori ... 23 4.6
ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) ... 23 4.6
ref|NP_224079.1| BRANCHED-CHAIN AMINO ACID AMINOTRANSFERASE... 22 6.1
ref|NP_223971.1| putative [Helicobacter pylori J99] 22 6.1
ref|NP_223536.1| CYSTEINYL-TRNA SYNTHETASE [Helicobacter py... 22 6.1
ref|NP_223491.1| putative [Helicobacter pylori J99] 22 6.1
ref|NP_223628.1| ADENOSYLMETHIONINE-8-AMINO-7-OXONONANOATE ... 22 7.9
>ref|NP_224055.1| putative [Helicobacter pylori J99]
Length = 152
Score = 296 bits (758), Expect = 2e-82
Identities = 150/152 (98%), Positives = 152/152 (99%)
Query: 1 MKLIASNKKAYFDYEILETLEAGLALLGSEVKALRQTRVNLKDNFVKIIKGEAFLFGVHI 60
MKLIASNKKAYFDYEILETLEAGLALLGSEVKALRQTRVNLKDNFVKIIKGEAFLFGVHI
Sbjct: 1 MKLIASNKKAYFDYEILETLEAGLALLGSEVKALRQTRVNLKDNFVKIIKGEAFLFGVHI 60
Query: 61 SYLDTIHAYYKPNERRERKLLLHKKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIAL 120
SYLDTIHAYYKPNERRERKLLLHKKQLLKWQ+EASKERLSIVGLKLYFNQ+NRAKIQIAL
Sbjct: 61 SYLDTIHAYYKPNERRERKLLLHKKQLLKWQMEASKERLSIVGLKLYFNQKNRAKIQIAL 120
Query: 121 VKGKRLHDKRQSLKEKALNKEILADLKHHFKG 152
VKGKRLHDKRQSLKEKALNKEILADLKHHFKG
Sbjct: 121 VKGKRLHDKRQSLKEKALNKEILADLKHHFKG 152
>ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter pylori J99]
Length = 623
Score = 26.2 bits (56), Expect = 0.42
Identities = 37/161 (22%), Positives = 62/161 (37%), Gaps = 19/161 (11%)
Query: 3 LIASNKKAYFDYEILETLEAGLALLGSEVKALRQTRVNLKDNFVKIIK----GEAFLFGV 58
L+ K Y D +LE E GL+ + + + K N+ K++K + F +
Sbjct: 20 LLVYTPKGYKDLSLLERFETGLS-------GVLEVGILEKKNYAKVLKIFAYSKRFYKNL 72
Query: 59 HISYLDTIHAYYKPNERRERKLLLHKKQLLKWQ----IEASKERLSIVGLKLYFNQ-RNR 113
+ + + YY + E + K + + I K + L F + +N
Sbjct: 73 ELVFFNHSAFYYNQFKTGESLFIYGKLEQSSFNQAYIINTPKILTEFGKISLIFKKVKNH 132
Query: 114 AKIQIALVKGKRLHD-KRQSLKEKA--LNKEILADLKHHFK 151
KIQ L K L + K++ +KE L EI H K
Sbjct: 133 KKIQENLQKLLSLENLKKEGVKENVARLLLEIFFPTPHFVK 173
>ref|NP_223366.1| putative [Helicobacter pylori J99]
Length = 300
Score = 26.2 bits (56), Expect = 0.42
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 23 GLALLGSEVKALRQTRVNLKDNFVKIIKGEAFLFGVHISYLDTIH 67
GL+ + + + QT +LKD V +KG AF ++ D H
Sbjct: 15 GLSSVHASNALILQTDFSLKDGAVSAMKGVAFSVDSNLKIFDLTH 59
>ref|NP_223810.1| glucose-6-phosphate isomerase [Helicobacter pylori J99]
Length = 545
Score = 25.8 bits (55), Expect = 0.55
Identities = 12/31 (38%), Positives = 16/31 (50%)
Query: 119 ALVKGKRLHDKRQSLKEKALNKEILADLKHH 149
A +KGK + L K L+K+ DL HH
Sbjct: 426 AFMKGKSYEEALGELLSKGLDKDEAKDLAHH 456
>ref|NP_223170.1| DNA POLYMERASE III, BETA CHAIN [Helicobacter pylori J99]
Length = 374
Score = 25.0 bits (53), Expect = 0.94
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 92 IEASKERL------SIVGLKLYFNQRNRAKIQIALVKGKRLHDKRQSLKEKALNKEILAD 145
+E KE+L S +GLK Y + ++ K + + GK+ D LK+ + E D
Sbjct: 35 LEVIKEKLFLKASDSDIGLKSYISTQSTDKEGVGTINGKKFLDIISCLKDSNIVLETKDD 94
>ref|NP_223963.1| FUMARASE [Helicobacter pylori J99]
Length = 463
Score = 24.3 bits (51), Expect = 1.6
Identities = 19/62 (30%), Positives = 27/62 (42%), Gaps = 15/62 (24%)
Query: 92 IEASKERLS---------IVGLKLYFNQRNRAKIQIALVKGKRLHDKRQSLKEKALNKEI 142
IE +KE++ + L + N AKI K H K SLKE AL ++
Sbjct: 390 IEPNKEKIDYYLHHSLMLVTALNPHVGYENAAKI------AKNAHKKGISLKESALELKL 443
Query: 143 LA 144
L+
Sbjct: 444 LS 445
>ref|NP_223562.1| putative FLAGELLAR BASAL-BODY/ROD/HOOKPROTEIN [Helicobacter pylori
J99]
Length = 605
Score = 23.9 bits (50), Expect = 2.1
Identities = 17/63 (26%), Positives = 29/63 (45%)
Query: 82 LHKKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIALVKGKRLHDKRQSLKEKALNKE 141
LH L QI ++ K+ + K + V+ L+DK + +KE+ LN++
Sbjct: 169 LHGNTLSPLQIPQDLTYQPVLSTKVNISVNLNPKDHLKGVQDFFLNDKGEIIKERFLNQD 228
Query: 142 ILA 144
I A
Sbjct: 229 INA 231
>ref|NP_222964.1| EXODEOXYRIBONUCLEASE LARGE SUBUNIT [Helicobacter pylori J99]
Length = 420
Score = 23.5 bits (49), Expect = 2.7
Identities = 17/45 (37%), Positives = 23/45 (50%), Gaps = 1/45 (2%)
Query: 76 RERKLLLHKKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIAL 120
R K LLH+K+ + AS +RLS K + N K+ IAL
Sbjct: 282 RSFKTLLHQKKAHLEHLAASLKRLSFEN-KHHLNALKLEKLTIAL 325
>ref|NP_223258.1| putative [Helicobacter pylori J99]
Length = 591
Score = 23.1 bits (48), Expect = 3.6
Identities = 24/101 (23%), Positives = 46/101 (44%), Gaps = 7/101 (6%)
Query: 47 KIIKGEAFLFGVHISYLDTIHAYYKPNERRERKLLLHKKQLLKWQIEASKERLSIVGLKL 106
+I+K FL V L+ + E +++++ +++ + + ++ E + LK
Sbjct: 310 RILKKAVFLEVVEGESLEILRILEGEEEVKKKQITTNQQAYV--YLYSNFEHCRHLALKC 367
Query: 107 YFNQR-----NRAKIQIALVKGKRLHDKRQSLKEKALNKEI 142
N R + + IA+V L Q L +KALNKE+
Sbjct: 368 LDNYRKYLFSSNLEGNIAIVDTITLGYSSQGLIQKALNKEV 408
>ref|NP_223636.1| DNA transfer protein [Helicobacter pylori J99]
Length = 140
Score = 22.7 bits (47), Expect = 4.6
Identities = 13/39 (33%), Positives = 18/39 (45%)
Query: 18 ETLEAGLALLGSEVKALRQTRVNLKDNFVKIIKGEAFLF 56
E +E G+ L SE+ L T + + VK I A F
Sbjct: 61 ELIECGVPLSDSEINFLHNTDMRARQVLVKNIVTNASAF 99
>ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 675
Score = 22.7 bits (47), Expect = 4.6
Identities = 10/30 (33%), Positives = 20/30 (66%)
Query: 111 RNRAKIQIALVKGKRLHDKRQSLKEKALNK 140
+NR+ + + VKGK L +SL++K++ +
Sbjct: 197 KNRSDLFLIGVKGKVLLSANKSLQDKSITE 226
>ref|NP_224079.1| BRANCHED-CHAIN AMINO ACID AMINOTRANSFERASE [Helicobacter pylori
J99]
Length = 340
Score = 22.3 bits (46), Expect = 6.1
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 103 GLKLYFNQRNRAKIQIALVKGKRLHDKRQSLKEKALNKEI 142
GLK Y +Q+ +A + L KRL + L +++E+
Sbjct: 61 GLKAYRSQKGKALLFRPLENAKRLQTSCERLLMPKVSEEL 100
>ref|NP_223971.1| putative [Helicobacter pylori J99]
Length = 376
Score = 22.3 bits (46), Expect = 6.1
Identities = 26/84 (30%), Positives = 36/84 (41%), Gaps = 16/84 (19%)
Query: 70 YKPNE--RRERKLLLHKKQLLKWQIEASKERLSIVGLKLYFNQRNRAKIQIALVKGKRLH 127
YK NE R + +L + + LK E K ++ + +FN QI RL
Sbjct: 42 YKLNESLRIYQNVLSNNQDQLK---EIKKANSTLTSQRRFFNAS-----QI------RLM 87
Query: 128 DKRQSLKEKALNKEILADLKHHFK 151
D LK+ AL E L L+ H K
Sbjct: 88 DTDALLKQSALELEKLQALEKHLK 111
>ref|NP_223536.1| CYSTEINYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 465
Score = 22.3 bits (46), Expect = 6.1
Identities = 11/17 (64%), Positives = 13/17 (75%)
Query: 131 QSLKEKALNKEILADLK 147
Q+ K KAL EILA+LK
Sbjct: 374 QNPKNKALKGEILANLK 390
>ref|NP_223491.1| putative [Helicobacter pylori J99]
Length = 462
Score = 22.3 bits (46), Expect = 6.1
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 25 ALLGSEVKALRQTRVNLKDNFVKIIKGEA 53
ALL E+KAL + D + ++ G++
Sbjct: 70 ALLSKEIKALNLKAAQMSDLILYVVDGKS 98
>ref|NP_223628.1| ADENOSYLMETHIONINE-8-AMINO-7-OXONONANOATE AMINOTRANSFERASE
[Helicobacter pylori J99]
Length = 439
Score = 21.9 bits (45), Expect = 7.9
Identities = 21/86 (24%), Positives = 38/86 (43%), Gaps = 17/86 (19%)
Query: 58 VHISYLDTIHAYYKPNERRERKLLLHKKQLLKWQIEASKERLSIVGLKLYFN-------- 109
+ I+ + HA++ N+ R +KL L + + LS+ +KLY +
Sbjct: 118 IEIALKMSYHAHFLKNQTRRKKLFLSLSNSYHGETLGA---LSVGDVKLYKDTYTPLLLK 174
Query: 110 ------QRNRAKIQIALVKGKRLHDK 129
+N ++I+ +L KRL DK
Sbjct: 175 NLITPVPKNDSEIENSLNALKRLLDK 200
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
0.321 0.138 0.380
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 163,026
Number of Sequences: 1491
Number of extensions: 7025
Number of successful extensions: 30
Number of sequences better than 10.0: 16
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 19
Number of HSP's gapped (non-prelim): 16
length of query: 152
length of database: 494,079
effective HSP length: 70
effective length of query: 82
effective length of database: 389,709
effective search space: 31956138
effective search space used: 31956138
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)