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|15645160|ref|NP_207330.1| cag pathogenicity island
protein (cag13) [Helicobacter pylori 26695]
(196 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223200.1| cag island protein [Helicobacter pylori J99] 378 e-107
ref|NP_224003.1| putative [Helicobacter pylori J99] 39 1e-04
ref|NP_223203.1| cag island protein [Helicobacter pylori J99] 34 0.003
ref|NP_223112.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobact... 30 0.033
ref|NP_223645.1| putative [Helicobacter pylori J99] 29 0.074
ref|NP_223720.1| putative CYTOCHROME C-TYPE BIOGENESIS PROT... 29 0.096
ref|NP_223629.1| putative [Helicobacter pylori J99] 28 0.21
ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobact... 27 0.28
ref|NP_223574.1| putative vacuolating cytotoxin (VacA) para... 27 0.37
ref|NP_223220.1| putative [Helicobacter pylori J99] 27 0.37
ref|NP_223323.1| putative [Helicobacter pylori J99] 27 0.48
ref|NP_223047.1| 1-DEOXYXYLULOSE-5-PHOSPHATE SYNTHASE [Heli... 27 0.48
ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 26 0.62
ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEAS... 26 0.81
ref|NP_224090.1| putative [Helicobacter pylori J99] 25 1.1
ref|NP_223679.1| arginine decarboxylase [Helicobacter pylor... 25 1.1
ref|NP_223159.1| putative [Helicobacter pylori J99] 25 1.1
ref|NP_223101.1| putative [Helicobacter pylori J99] 25 1.4
ref|NP_222978.1| putative [Helicobacter pylori J99] 25 1.4
ref|NP_223560.1| putative [Helicobacter pylori J99] 25 1.8
ref|NP_223411.1| putative [Helicobacter pylori J99] 25 1.8
ref|NP_224165.1| NA(+)/H(+) ANTIPORTER 1 [Helicobacter pylo... 24 2.4
ref|NP_223934.1| 30S RIBOSOMAL PROTEIN S13 [Helicobacter py... 24 2.4
ref|NP_223346.1| putative [Helicobacter pylori J99] 24 2.4
ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN... 24 2.4
ref|NP_222962.1| putative [Helicobacter pylori J99] 24 2.4
ref|NP_222944.1| PROLYL-TRNA SYNTHETASE [Helicobacter pylor... 24 2.4
ref|NP_223653.1| putative [Helicobacter pylori J99] 24 3.1
ref|NP_223402.1| putative [Helicobacter pylori J99] 24 3.1
ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT ... 23 4.0
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 23 4.0
ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter p... 23 4.0
ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99] 23 4.0
ref|NP_223389.1| putative [Helicobacter pylori J99] 23 4.0
ref|NP_222894.1| putative [Helicobacter pylori J99] 23 4.0
ref|NP_223913.1| FLAGELLAR FUNCTIONAL PROTEIN [Helicobacter... 23 5.3
ref|NP_223119.1| putative co-chaperone with DnaK [Helicobac... 23 5.3
ref|NP_224017.1| putative ribonuclease N [Helicobacter pylo... 23 6.9
ref|NP_224015.1| putative TYPE III RESTRICTION ENZYME [Heli... 23 6.9
ref|NP_223407.1| putative FLAGELLAR HOOK-ASSOCIATED PROTEIN... 23 6.9
ref|NP_223387.1| putative [Helicobacter pylori J99] 23 6.9
ref|NP_222762.1| HYDROGENASE EXPRESSION/FORMATION PROTEIN [... 23 6.9
ref|NP_223749.1| putative lipopolysaccharide biosynthesis p... 22 9.0
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 22 9.0
ref|NP_223189.1| cag island protein [Helicobacter pylori J99] 22 9.0
>ref|NP_223200.1| cag island protein [Helicobacter pylori J99]
Length = 199
Score = 378 bits (971), Expect = e-107
Identities = 191/196 (97%), Positives = 195/196 (99%)
Query: 1 MSNNMRKLFSMIADSKDKKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGA 60
MSNNMRKLFSMIA+SKDKKEKLIESLQENELL+TDEKKKIIDQIKTMHDFFKQMHTNKGA
Sbjct: 1 MSNNMRKLFSMIANSKDKKEKLIESLQENELLNTDEKKKIIDQIKTMHDFFKQMHTNKGA 60
Query: 61 LDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAENPNFLFSKFDRSILGI 120
LDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAENPNFLFSKFDRSILGI
Sbjct: 61 LDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAENPNFLFSKFDRSILGI 120
Query: 121 FLPFFSKPIMFKMSIREMDSQIELYGTKLPLLKLFVMTDEEMNFYANLKTIEQYNDYVRD 180
FLPFFSKPIMFKMSIREMDSQIELYGTKLP LKLFVMTDEE+NFYANLKTIEQYNDYVRD
Sbjct: 121 FLPFFSKPIMFKMSIREMDSQIELYGTKLPPLKLFVMTDEEVNFYANLKTIEQYNDYVRD 180
Query: 181 LLMKFDLEKYMKEKGV 196
LLMKFDLEKYM+EKGV
Sbjct: 181 LLMKFDLEKYMEEKGV 196
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 38.5 bits (88), Expect = 1e-04
Identities = 39/130 (30%), Positives = 62/130 (47%), Gaps = 16/130 (12%)
Query: 9 FSMIADSKDKKEKLIESLQE-NELLSTDE---KKKI----IDQIKTMHDFFKQMHTNKGA 60
F + DKKEKLI+++QE E D+ +KKI ID T + KQ T K
Sbjct: 744 FKRVKVKADKKEKLIQTIQEVKEHAPLDKETLRKKIAQGEIDPYDT--EKHKQDRTFKVG 801
Query: 61 LDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLE-----SETMELLHAIAENPNF-LFSKFD 114
++L+ Y +IK+ D K V ++ E +++ + EN +F FSK D
Sbjct: 802 DAELLKLKEHYYTPLIKAKNCDWLKHVVKVKSESDFLEELLKITETLQENYDFWAFSKID 861
Query: 115 RSILGIFLPF 124
+ +F+P+
Sbjct: 862 EHLDNLFIPY 871
>ref|NP_223203.1| cag island protein [Helicobacter pylori J99]
Length = 376
Score = 33.9 bits (76), Expect = 0.003
Identities = 48/222 (21%), Positives = 98/222 (43%), Gaps = 53/222 (23%)
Query: 1 MSNNMRKLFSMIADSKDKKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGA 60
+S N+ + S + K ++E++ + +E+ L + +KK+++ HDF + + K
Sbjct: 16 LSANVEQFGSFFNEIKKEQEEV--AAKEDALKA---RKKLLNNT---HDFLEDLVFRKQK 67
Query: 61 LDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETM------------ELLHAIAENPNF 108
+ +++ DYRA + +K+KK LE ET +L A+ +NP +
Sbjct: 68 IKELV-----DYRAKVLLDLENKYKKEKEALEKETRGKILTAKSKAYGDLEQALKDNPLY 122
Query: 109 ---------------LFSKFDRSILGIFLPFFSKPIMFKMSIREMDSQIELYGTKLPLLK 153
F++ D+ L + P +FK + + + LL+
Sbjct: 123 KKLLPNPYAYVLNQETFTQEDKERLSYYYPQVKTSSIFKKTTATTKDKAQ------ALLQ 176
Query: 154 LFVMT-DEEMNFYAN------LKTIEQYNDYVRDLLMKFDLE 188
+ V + DEE N A+ + IE+Y++ + +LL + +L+
Sbjct: 177 MGVFSLDEEQNKKASRLALSYKQAIEEYSNNISNLLSRKELD 218
>ref|NP_223112.1| FLAGELLAR MOTOR SWITCH PROTEIN [Helicobacter pylori J99]
Length = 354
Score = 30.4 bits (67), Expect = 0.033
Identities = 21/73 (28%), Positives = 38/73 (51%), Gaps = 8/73 (10%)
Query: 15 SKDKKEKLIESLQENELLSTDEKKKIIDQIK-TMHDFFKQMHTNKGAL-------DKVLR 66
S+++ + L+E + EN + +KK II Q T++DF + +K L DK+ R
Sbjct: 6 SQEEIDALLEVVDENVDIQNVQKKDIIPQRSVTLYDFKRPNRVSKEQLRSFRSIHDKMAR 65
Query: 67 NYMKDYRAVIKSI 79
N ++++SI
Sbjct: 66 NLSSQVSSIMRSI 78
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 29.3 bits (64), Expect = 0.074
Identities = 19/64 (29%), Positives = 31/64 (47%), Gaps = 4/64 (6%)
Query: 11 MIADSKDKK----EKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVLR 66
+I DS +++ +KLI++L+ EL+ D ++Q M F K N D L+
Sbjct: 887 LIIDSSNERYQEVQKLIKNLERRELVKWDNLYFQLEQNNEMGIFLKPTKINSKVQDSRLK 946
Query: 67 NYMK 70
Y K
Sbjct: 947 AYFK 950
>ref|NP_223720.1| putative CYTOCHROME C-TYPE BIOGENESIS PROTEIN [Helicobacter pylori
J99]
Length = 936
Score = 28.9 bits (63), Expect = 0.096
Identities = 35/159 (22%), Positives = 60/159 (37%), Gaps = 21/159 (13%)
Query: 18 KKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVLRNYMKDYRAVIK 77
K K+ EN D K I++++K LR Y KD+ +
Sbjct: 372 KSAKIERQKIENPANKEDSKSAILERLKR------------------LREYSKDHLKAFQ 413
Query: 78 SIGVDKFKKVYRLLESETMELLHAIAENPNFLFSKFDRSILGI-FLPFFSKPIMFKMSIR 136
+ V F + L++ ++E +H I +F + +LGI F P + I KM
Sbjct: 414 RLQVQDFDGRIKPLDTISIEYIHKILRKDDFQGLNAMQVLLGIMFFPNDWRSI--KMIYT 471
Query: 137 EMDSQIELYGTKLPLLKLFVMTDEEMNFYANLKTIEQYN 175
+ +L GT L ++ + Y +E+ N
Sbjct: 472 SNKALRKLIGTPLDESRIAFRDAFDSRGYKLKNLVEEVN 510
>ref|NP_223629.1| putative [Helicobacter pylori J99]
Length = 487
Score = 27.7 bits (60), Expect = 0.21
Identities = 34/178 (19%), Positives = 67/178 (37%), Gaps = 12/178 (6%)
Query: 9 FSMIADSKDK----KEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKV 64
FS+ +DS K K E QE L + I D + D K MH K ALD +
Sbjct: 36 FSLDSDSAAKVGQIKISQEELAQEYRRLKDAYAESIPDFKELTEDQIKAMHLEKSALDSL 95
Query: 65 LRNYMKDYRAVIKSIGVDKFKKVYRLLESETM--------ELLHAIAENPNFLFSKFDRS 116
+ + A+ +G K + + ++ EL I + ++ F+ S
Sbjct: 96 INQALLRNFALDLGLGATKQEVAKEIRKTNVFQKDGVFDEELYKNILKQSHYRPKHFEES 155
Query: 117 ILGIFLPFFSKPIMFKMSIREMDSQIELYGTKLPLLKLFVMTDEEMNFYANLKTIEQY 174
+ + + + K + S + L+ L + ++ ++ N + +++Y
Sbjct: 156 VERLLILQKISALFPKTTTPLEQSSLSLWAKLQDKLDILILNPNDVKISLNEEEMKKY 213
>ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobacter pylori J99]
Length = 414
Score = 27.3 bits (59), Expect = 0.28
Identities = 21/71 (29%), Positives = 36/71 (50%), Gaps = 9/71 (12%)
Query: 5 MRKLFSMI----ADSKDKKEKLIESLQENELLSTD---EKKKIIDQIKTMHDFFKQMHTN 57
+RK FS + +KD KE + L EL + + E +KII ++ H+F K +
Sbjct: 135 VRKRFSYLNPAGIGAKDVKEGFLFQLDGRELDNNELYEETRKIILNLEKHHEFSKDFYYE 194
Query: 58 KGALDKVLRNY 68
K K+L+++
Sbjct: 195 KAL--KILKSF 203
>ref|NP_223574.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 2399
Score = 26.9 bits (58), Expect = 0.37
Identities = 11/44 (25%), Positives = 28/44 (63%)
Query: 2 SNNMRKLFSMIADSKDKKEKLIESLQENELLSTDEKKKIIDQIK 45
S N++ L +++ + +++IES Q + + + +E +++D+IK
Sbjct: 1227 SENLKTLLGILSQNSATLKEMIESNQLDNITNINEVLQLLDKIK 1270
>ref|NP_223220.1| putative [Helicobacter pylori J99]
Length = 273
Score = 26.9 bits (58), Expect = 0.37
Identities = 36/150 (24%), Positives = 60/150 (40%), Gaps = 28/150 (18%)
Query: 31 LLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVLRNYMKDYRAVIKSIGVDKFKKVYRL 90
LLS D I+ + + H NK L+++ +N KD+ Y +
Sbjct: 14 LLSADALNDKIENLMGERSY----HMNKLFLERLFKN-RKDF---------------YEM 53
Query: 91 LESETMELLHAIAENPNFLFSKFDRSILGIFLPFFSKPIMFKMSIREMDSQIELYGTKLP 150
++++LL+ + EN F+ S+L I S P+ F SI ++ + + G
Sbjct: 54 GRLDSLKLLNTLKENGLLSFNFDKPSVLKITFKASSNPLAFAKSI---NNSLNMMGYSYV 110
Query: 151 LLKLFVMTDEEMNFYANLKTIEQYNDYVRD 180
L + E F LKT +YV D
Sbjct: 111 LPIRMQSSSGENVFSYELKT-----EYVLD 135
>ref|NP_223323.1| putative [Helicobacter pylori J99]
Length = 335
Score = 26.6 bits (57), Expect = 0.48
Identities = 24/99 (24%), Positives = 45/99 (45%), Gaps = 6/99 (6%)
Query: 8 LFSMIADSKDKKEKLIESLQE--NELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVL 65
+F A SK E IE L+ N L +EK ++D + + + K + ++L
Sbjct: 73 MFLARAYSKADVEMSIEILKGLLNRPLKDEEKIAVLDLLAKNYFSVGYLQKTKDTVKEIL 132
Query: 66 RNYMKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAE 104
R ++ A++K + + +K Y S+ +E L + E
Sbjct: 133 RFSPRNVEALLKLLHAYELEKDY----SKALETLECLEE 167
>ref|NP_223047.1| 1-DEOXYXYLULOSE-5-PHOSPHATE SYNTHASE [Helicobacter pylori J99]
Length = 618
Score = 26.6 bits (57), Expect = 0.48
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 14/73 (19%)
Query: 44 IKTMHDFFKQMHTNKGALDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIA 103
I ++D + T GAL K L MK Y+ S+ ++L +
Sbjct: 165 IMILNDNEMSISTPIGALSKALSQLMKG--------------PFYQSFRSKVKKILSTLP 210
Query: 104 ENPNFLFSKFDRS 116
E+ N+L S+F+ S
Sbjct: 211 ESVNYLASRFEES 223
>ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 875
Score = 26.2 bits (56), Expect = 0.62
Identities = 17/81 (20%), Positives = 35/81 (42%), Gaps = 18/81 (22%)
Query: 24 ESLQENELLSTDEKKKIIDQ------IKTMHDFFKQMHTNKGALDKVLRNYMKDYRAVIK 77
E +++ E+ + DEK ++D K + + F Q NK + +++
Sbjct: 372 EGIKDKEVRAVDEKNALLDSRRIKEIAKCILERFHQATKNK------------KFNSILA 419
Query: 78 SIGVDKFKKVYRLLESETMEL 98
G++ KK Y+ + E +L
Sbjct: 420 CSGIEALKKYYQAFKEEKHDL 440
>ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEASING FACTOR) (RRF)
[Helicobacter pylori J99]
Length = 185
Score = 25.8 bits (55), Expect = 0.81
Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 12/61 (19%)
Query: 1 MSNNMRKLFSMIADSKDKKEKL------------IESLQENELLSTDEKKKIIDQIKTMH 48
M+ RKL + A + +K K+ ++ L++++ +S DE KK +QI+ +
Sbjct: 105 MTTEQRKLIAKDAKAMGEKAKVAVRNTRQDANNKVKKLEKDKEISEDESKKAQEQIQKIT 164
Query: 49 D 49
D
Sbjct: 165 D 165
>ref|NP_224090.1| putative [Helicobacter pylori J99]
Length = 841
Score = 25.4 bits (54), Expect = 1.1
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 14 DSKDKKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGAL 61
++K++KE ++ + ++ I +IK+ +FFKQ+ NK L
Sbjct: 15 ENKNEKETPLKGIHSKIPSLKQALEQTISKIKSSKEFFKQLLHNKKKL 62
>ref|NP_223679.1| arginine decarboxylase [Helicobacter pylori J99]
Length = 615
Score = 25.4 bits (54), Expect = 1.1
Identities = 10/34 (29%), Positives = 22/34 (64%)
Query: 14 DSKDKKEKLIESLQENELLSTDEKKKIIDQIKTM 47
D+K+ + L + +++N L +EKK+I+ ++ M
Sbjct: 571 DTKEIERLLKQKIEDNNQLDMEEKKEIMGRLYVM 604
>ref|NP_223159.1| putative [Helicobacter pylori J99]
Length = 181
Score = 25.4 bits (54), Expect = 1.1
Identities = 15/65 (23%), Positives = 30/65 (46%)
Query: 37 KKKIIDQIKTMHDFFKQMHTNKGALDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETM 96
K K+ + + +F MH N+ + L ++ ++ IK + ++ LLE ET
Sbjct: 89 KTKMKEYERFFSEFNTSMHANEQEVTATLNANTENIKSEIKKLENQLIEETRMLLEQETQ 148
Query: 97 ELLHA 101
+ + A
Sbjct: 149 KSVKA 153
>ref|NP_223101.1| putative [Helicobacter pylori J99]
Length = 347
Score = 25.0 bits (53), Expect = 1.4
Identities = 35/162 (21%), Positives = 63/162 (38%), Gaps = 30/162 (18%)
Query: 17 DKKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVLRNYMKDYRAVI 76
++ E L + +QE+ L + D + +++D + + + H Y D
Sbjct: 69 NEAEYLQDKIQEHRLQNKDIQIQLLDHHISGKEVAESFHW-----------YFLDTNRCA 117
Query: 77 KSIGVDKFKKVYRLLESETMELLHAIAENPNFLFSKFDRSILGIFLPFFSKPIMFKMSIR 136
I + KK Y +LES+ L + E N + +D G L K+ +R
Sbjct: 118 TKIVYEFLKKYYAILESKNTLWLEPLVEMVNSV-DIWDTQGYGFELG--------KVCMR 168
Query: 137 EMDSQIELYGTKLPLLKLFVMTDEEMNFYANLKTIEQYNDYV 178
+ E L F+ DE N+ LK +E+ +Y+
Sbjct: 169 MITQSSE--------LNRFMFDDENRNY--KLKLLEEVKNYL 200
>ref|NP_222978.1| putative [Helicobacter pylori J99]
Length = 177
Score = 25.0 bits (53), Expect = 1.4
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 153 KLFVMTDEEMNFYANLKTIEQYNDYVRDLL 182
+L V TDE + K YND +RD+L
Sbjct: 66 RLQVKTDETLKLIKEAKKRLNYNDDIRDVL 95
>ref|NP_223560.1| putative [Helicobacter pylori J99]
Length = 524
Score = 24.6 bits (52), Expect = 1.8
Identities = 18/54 (33%), Positives = 27/54 (49%), Gaps = 4/54 (7%)
Query: 54 MHTNKGALDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAENPN 107
+HTN AL+ +N +KD + KS D F K+ L + + A E+PN
Sbjct: 8 IHTNANALNSGAKNEVKDAKNAPKSASKD-FSKI---LNQKISKDKTAPKESPN 57
>ref|NP_223411.1| putative [Helicobacter pylori J99]
Length = 48
Score = 24.6 bits (52), Expect = 1.8
Identities = 15/42 (35%), Positives = 20/42 (46%)
Query: 139 DSQIELYGTKLPLLKLFVMTDEEMNFYANLKTIEQYNDYVRD 180
D + EL + L+ F DEE N Y N+ + Y DY D
Sbjct: 3 DYEDELEDFEEEELEGFEEEDEEYNDYKNVYDDDDYEDYNSD 44
>ref|NP_224165.1| NA(+)/H(+) ANTIPORTER 1 [Helicobacter pylori J99]
Length = 438
Score = 24.3 bits (51), Expect = 2.4
Identities = 21/65 (32%), Positives = 30/65 (45%), Gaps = 3/65 (4%)
Query: 90 LLESETMELLHAIAENPNFLFSKFDR--SILGIFLPFFSKPIM-FKMSIREMDSQIELYG 146
LL E E+LH+I E + L S +R L +F P+ F + +DS I L
Sbjct: 273 LLTKEQQEILHSIEEKASALQSPLERLEHFLAPISGYFIMPLFAFANAGVSVDSSINLEV 332
Query: 147 TKLPL 151
K+ L
Sbjct: 333 DKVLL 337
>ref|NP_223934.1| 30S RIBOSOMAL PROTEIN S13 [Helicobacter pylori J99]
Length = 120
Score = 24.3 bits (51), Expect = 2.4
Identities = 10/35 (28%), Positives = 22/35 (62%)
Query: 15 SKDKKEKLIESLQENELLSTDEKKKIIDQIKTMHD 49
S+D+ + + +Q++ L+ D +KK+ IK++ D
Sbjct: 49 SEDEVSSIAKKIQQSYLVEGDLRKKVQMDIKSLMD 83
Score = 24.3 bits (51), Expect = 2.4
Identities = 9/37 (24%), Positives = 21/37 (56%)
Query: 69 MKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAEN 105
+K R +++++G+ K+V+ L E E + I ++
Sbjct: 27 LKSSREILEAVGISFDKRVHELSEDEVSSIAKKIQQS 63
>ref|NP_223346.1| putative [Helicobacter pylori J99]
Length = 276
Score = 24.3 bits (51), Expect = 2.4
Identities = 17/52 (32%), Positives = 24/52 (45%), Gaps = 5/52 (9%)
Query: 17 DKKEKLIESLQENELLSTDEKKKIID-----QIKTMHDFFKQMHTNKGALDK 63
D L+ ++ N LS EKK IID + + F + KGAL+K
Sbjct: 189 DVSGDLVHAIYYNPHLSQKEKKGIIDGYCQSDVLNTYWLFLKYEVLKGALNK 240
>ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN 3 (HAP3) [Helicobacter
pylori J99]
Length = 828
Score = 24.3 bits (51), Expect = 2.4
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 6/48 (12%)
Query: 2 SNNMRKLFSMIAD---SKDKKEKLIESLQE---NELLSTDEKKKIIDQ 43
SN ++ I+D SK+ KE+ IE L++ N ++ +E+ K+I Q
Sbjct: 610 SNTDPAIYQQISDNPTSKESKERFIELLKQAKDNLSINLNEEGKVIIQ 657
>ref|NP_222962.1| putative [Helicobacter pylori J99]
Length = 222
Score = 24.3 bits (51), Expect = 2.4
Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 7 KLFSMIADSKDKKEKLIESLQEN--------ELLSTDEKKKIIDQIKTMHDFFKQMHTNK 58
+L +D +KKEK I+ +N + L T+EKK++ + I+ +++ K
Sbjct: 60 RLLDEKSDLLNKKEKEIDEKLKNLAAKEEAFKTLQTEEKKRLKNLIEENEGILREIKQAK 119
Query: 59 GALDKVLRNYMKDYRAVI 76
+ + MKD ++ +
Sbjct: 120 DSKIGETYSKMKDSKSAL 137
>ref|NP_222944.1| PROLYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 576
Score = 24.3 bits (51), Expect = 2.4
Identities = 10/41 (24%), Positives = 23/41 (55%), Gaps = 5/41 (12%)
Query: 55 HTNKGALDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLESET 95
H + +LDK N Y+ ++ +G+D +R++E+++
Sbjct: 164 HEDAESLDKEFLNTQSAYKEILSDLGLD-----FRIVEADS 199
>ref|NP_223653.1| putative [Helicobacter pylori J99]
Length = 177
Score = 23.9 bits (50), Expect = 3.1
Identities = 14/48 (29%), Positives = 24/48 (49%), Gaps = 1/48 (2%)
Query: 20 EKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVLRN 67
E +E L++N ST EK+ I+D+++ + KG L+ N
Sbjct: 119 ESSLEKLKDN-YTSTQEKENIMDKLEQIDSIKPFNERLKGILENAKEN 165
>ref|NP_223402.1| putative [Helicobacter pylori J99]
Length = 400
Score = 23.9 bits (50), Expect = 3.1
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 152 LKLFVMTDEEMNFYANLKTIEQYNDYVRDLLMK 184
++LFV+ E FY N ++ N++ LL++
Sbjct: 352 VRLFVLLAENQVFYLNKSPLKTLNNHKAHLLLQ 384
>ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT [Helicobacter pylori J99]
Length = 2890
Score = 23.5 bits (49), Expect = 4.0
Identities = 12/65 (18%), Positives = 36/65 (54%), Gaps = 1/65 (1%)
Query: 3 NNMRKLFSMIADSKDKKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALD 62
+++ +L+ + + + ++L+E L E++ +EK+ + + + + D + + KGA
Sbjct: 1652 SDVNELYRRVINRNQRLKRLME-LGAPEIIVRNEKRMLQEAVDVLFDNGRSTNAVKGANK 1710
Query: 63 KVLRN 67
+ L++
Sbjct: 1711 RPLKS 1715
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 23.5 bits (49), Expect = 4.0
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 162 MNFYANLKTIEQYNDYVRDL 181
+NF A TIEQYN+ ++ +
Sbjct: 370 LNFQAYQSTIEQYNNALKQI 389
>ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter pylori J99]
Length = 171
Score = 23.5 bits (49), Expect = 4.0
Identities = 19/91 (20%), Positives = 46/91 (49%), Gaps = 12/91 (13%)
Query: 1 MSNNMRKLFSMIADSKDKKEKLIESLQE----NELLSTDEKKKIID-----QIKTMHDFF 51
+S + ++ + + SK+ K+KL++ L++ EL+ +D K+ +++T D
Sbjct: 62 ISKRLEEIQAQLKVSKEHKKKLLKELEQAKEKAELIISDANKEAYTITQKYELQTKMDVE 121
Query: 52 KQMHTNKGALDKVLRNYMKDYRAVIKSIGVD 82
+ +K +D ++ K R +++S+ D
Sbjct: 122 NLIKNSKALMDLEVK---KIKRELVESVFKD 149
>ref|NP_223449.1| TRIGGER FACTOR [Helicobacter pylori J99]
Length = 451
Score = 23.5 bits (49), Expect = 4.0
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 15 SKDKKEKLIESLQENELLSTDEKKKIIDQ 43
+++ KEKLIE+L E L D K II+Q
Sbjct: 290 NEELKEKLIENLDEKILF--DLPKTIIEQ 316
>ref|NP_223389.1| putative [Helicobacter pylori J99]
Length = 439
Score = 23.5 bits (49), Expect = 4.0
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 73 RAVIKSIGVDKFKKVYRLLESETMELLHAIAENPNF 108
RA+ K + + +Y S T+EL+ AI ++P F
Sbjct: 215 RAIDKQQALKSARILYLYPSSTTLELIGAIEDSPIF 250
>ref|NP_222894.1| putative [Helicobacter pylori J99]
Length = 268
Score = 23.5 bits (49), Expect = 4.0
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 12 IADSKD-KKEKLIESLQENELLSTDEKKKIIDQIK 45
I ++KD KK+ ESL + D+ K++D IK
Sbjct: 64 IGNTKDEKKDDEFESLNMDSPKQEDKLDKVVDNIK 98
>ref|NP_223913.1| FLAGELLAR FUNCTIONAL PROTEIN [Helicobacter pylori J99]
Length = 803
Score = 23.1 bits (48), Expect = 5.3
Identities = 17/67 (25%), Positives = 35/67 (51%), Gaps = 4/67 (5%)
Query: 9 FSMIADSKDKKE--KLIESLQE--NELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKV 64
F++I + K+ K +E+L + N LS ++ +K + ++ D Q +K +L+K
Sbjct: 716 FALIDAYRTTKDYSKALETLDKLLNRRLSLEDHQKALYLQSSLLDLTNQKAKSKASLEKC 775
Query: 65 LRNYMKD 71
++ KD
Sbjct: 776 VQLKQKD 782
>ref|NP_223119.1| putative co-chaperone with DnaK [Helicobacter pylori J99]
Length = 288
Score = 23.1 bits (48), Expect = 5.3
Identities = 11/29 (37%), Positives = 18/29 (61%)
Query: 15 SKDKKEKLIESLQENELLSTDEKKKIIDQ 43
+K+ +EK E E+LS +EK++ DQ
Sbjct: 38 TKEAEEKFKEINAAYEILSDEEKRRQYDQ 66
>ref|NP_224017.1| putative ribonuclease N [Helicobacter pylori J99]
Length = 292
Score = 22.7 bits (47), Expect = 6.9
Identities = 22/89 (24%), Positives = 37/89 (40%), Gaps = 6/89 (6%)
Query: 28 ENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKV-----LRNYMKDYRAVIKSIGVD 82
E E L K+I IK + FK+ G L++V L + ++YR++ I D
Sbjct: 70 EMEALIFPNAPKLIGAIKDFLENFKKTDMTLGTLEEVSIVVALVLFCENYRSIASKI-FD 128
Query: 83 KFKKVYRLLESETMELLHAIAENPNFLFS 111
+ Y + + + L FLF+
Sbjct: 129 AKPRDYAHFKGKEIFLFWGFGTTLVFLFA 157
>ref|NP_224015.1| putative TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 779
Score = 22.7 bits (47), Expect = 6.9
Identities = 14/48 (29%), Positives = 25/48 (51%), Gaps = 8/48 (16%)
Query: 3 NNMRKLFSMIADSKD--------KKEKLIESLQENELLSTDEKKKIID 42
+ ++ LFS+ +K+ K +KL+ E L+T+ KKK+ D
Sbjct: 88 STIQGLFSLFTRAKENAITLEDLKDQKLVFLADEAHHLNTETKKKLND 135
>ref|NP_223407.1| putative FLAGELLAR HOOK-ASSOCIATED PROTEIN 2 (HAP2) [Helicobacter
pylori J99]
Length = 685
Score = 22.7 bits (47), Expect = 6.9
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 9 FSMIADSKDKKEKLIESLQENELLSTDEKKKIIDQIKTM 47
+ +I KD EK + + + ++ EK+K + +IKT+
Sbjct: 18 YDVIDKLKDADEKALIAPLDKKMEQNVEKQKALVEIKTL 56
>ref|NP_223387.1| putative [Helicobacter pylori J99]
Length = 371
Score = 22.7 bits (47), Expect = 6.9
Identities = 39/188 (20%), Positives = 71/188 (37%), Gaps = 27/188 (14%)
Query: 14 DSKDKKEKLIESLQENELLSTDEKKKIIDQIKTMHDFFKQMHTNKGALDKVLRNYMKDYR 73
D KK+K ++ + ELL K +++ F K + K++++
Sbjct: 33 DFDKKKQKFLKDFKAGELLYQSHFKPLVE--------FIAEELLKNSRAKIIQSNCNKAL 84
Query: 74 AVIKSIGVDKFKKVYRLLESETMELLHAIAENPNFLFSKFDRSILGIFLPFFSKPIMFKM 133
V++ + + + ++ E E L D+ I + FSK F+
Sbjct: 85 KVVEELQNTIKTTIEKQIDPGIKETQEHQQEARFNLDRSTDKFISDLEKSAFSKINQFEF 144
Query: 134 SIR-EMDSQI----------ELYGTKLPLLKLFVMTDEEMNFY--------ANLKTIEQY 174
+ R EM +I E++G +L K ++ D E F + K IEQ
Sbjct: 145 NFRKEMHERIERGIGNNECKEIFGNELKQRKTKLIEDIERRFKECEEQFRGSVGKNIEQL 204
Query: 175 NDYVRDLL 182
+ V+D L
Sbjct: 205 EERVKDSL 212
>ref|NP_222762.1| HYDROGENASE EXPRESSION/FORMATION PROTEIN [Helicobacter pylori J99]
Length = 332
Score = 22.7 bits (47), Expect = 6.9
Identities = 10/26 (38%), Positives = 17/26 (64%)
Query: 146 GTKLPLLKLFVMTDEEMNFYANLKTI 171
G ++PLLK + + ++ F ANLK +
Sbjct: 97 GLEIPLLKQILQSIQKELFKANLKLL 122
>ref|NP_223749.1| putative lipopolysaccharide biosynthesis protein [Helicobacter
pylori J99]
Length = 398
Score = 22.3 bits (46), Expect = 9.0
Identities = 28/119 (23%), Positives = 49/119 (40%), Gaps = 16/119 (13%)
Query: 47 MHDFFKQMHTNKGALDKVLRNYMKDYRAVIKSIGVDKFKKVYRLLES------ETMELLH 100
M D+ K+MHTN+ + + Y + +KS FK Y +S + ++
Sbjct: 282 MSDYTKKMHTNESFYTTKMAE--QHYFSSVKSSKEIVFKAPYLFFKSYLFVVFKERKIHS 339
Query: 101 AIAENPNFLFSKFDRSILGIFLPFFSKPIMFKMSIREMDSQIELYG------TKLPLLK 153
+ E L KF + I+ F + K ++ ++ + L+G KL LLK
Sbjct: 340 RVFELTCNLVKKFFNKL--IYFVFLMPKALVKRAVSKILRVLGLHGIVKKILIKLKLLK 396
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 22.3 bits (46), Expect = 9.0
Identities = 11/35 (31%), Positives = 20/35 (56%), Gaps = 1/35 (2%)
Query: 12 IADSKD-KKEKLIESLQENELLSTDEKKKIIDQIK 45
+AD K+ KE+L + Q+NE +T + + +K
Sbjct: 811 LADLKNFSKEQLAQQAQKNEDFNTGKNSALYQSVK 845
>ref|NP_223189.1| cag island protein [Helicobacter pylori J99]
Length = 481
Score = 22.3 bits (46), Expect = 9.0
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 16 KDKKEKLIESLQENELLSTDEKKK 39
++ KEKLIE L N L +E+++
Sbjct: 279 ENSKEKLIEELIANSQLIANEEER 302
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 0.375
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 219,668
Number of Sequences: 1491
Number of extensions: 10364
Number of successful extensions: 81
Number of sequences better than 10.0: 45
Number of HSP's better than 10.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 52
Number of HSP's gapped (non-prelim): 48
length of query: 196
length of database: 494,079
effective HSP length: 73
effective length of query: 123
effective length of database: 385,236
effective search space: 47384028
effective search space used: 47384028
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: 46 (22.3 bits)