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|15645870|ref|NP_208048.1| ribosome releasing factor
(frr) [Helicobacter pylori 26695]
(185 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEAS... 352 4e-99
ref|NP_223617.1| putative [Helicobacter pylori J99] 32 0.010
ref|NP_223234.1| putative [Helicobacter pylori J99] 30 0.040
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 30 0.052
ref|NP_223787.1| putative [Helicobacter pylori J99] 29 0.068
ref|NP_223608.1| putative [Helicobacter pylori J99] 29 0.089
ref|NP_223761.1| putative [Helicobacter pylori J99] 28 0.12
ref|NP_222920.1| GLUCOSE INHIBITED DIVISION PROTEIN A [Heli... 28 0.12
ref|NP_222729.1| putative Outer membrane protein [Helicobac... 28 0.12
ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter p... 28 0.15
ref|NP_223625.1| putative [Helicobacter pylori J99] 28 0.20
ref|NP_223396.1| HIT FAMILY PROTEIN [Helicobacter pylori J99] 27 0.26
ref|NP_223158.1| putative [Helicobacter pylori J99] 27 0.26
ref|NP_223195.1| cag island protein [Helicobacter pylori J99] 27 0.34
ref|NP_223039.1| putative [Helicobacter pylori J99] 26 0.58
ref|NP_223388.1| putative [Helicobacter pylori J99] 26 0.75
ref|NP_223866.1| PERIPLASMIC CYTOCHROME C-553 [Helicobacter... 25 0.98
ref|NP_223200.1| cag island protein [Helicobacter pylori J99] 25 0.98
ref|NP_223025.1| putative [Helicobacter pylori J99] 25 0.98
ref|NP_222990.1| putative [Helicobacter pylori J99] 25 1.3
ref|NP_223773.1| putative [Helicobacter pylori J99] 25 1.7
ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pyl... 25 1.7
ref|NP_222927.1| putative AMINOTRANSFERASE [Helicobacter py... 25 1.7
ref|NP_223283.1| DNA MISMATCH REPAIR PROTEIN [Helicobacter ... 24 2.2
ref|NP_223181.1| 50S RIBOSOMAL PROTEIN L9 [Helicobacter pyl... 24 2.2
ref|NP_223108.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 24 2.2
ref|NP_222831.1| putative [Helicobacter pylori J99] 24 2.2
ref|NP_224125.1| N-UTILIZATION SUBSTANCE PROTEIN A [Helicob... 24 2.9
ref|NP_223084.1| putative [Helicobacter pylori J99] 24 2.9
ref|NP_222962.1| putative [Helicobacter pylori J99] 24 2.9
ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1)... 23 3.7
ref|NP_223321.1| GLU-TRNA AMIDOTRANSFERASE, SUBUNIT B [Heli... 23 3.7
ref|NP_223176.1| putative [Helicobacter pylori J99] 23 3.7
ref|NP_222823.1| 24kDa chaperone [Helicobacter pylori J99] 23 3.7
ref|NP_223998.1| REPLICATIVE DNA HELICASE [Helicobacter pyl... 23 4.9
ref|NP_223939.1| 50S RIBOSOMAL PROTEIN L15 [Helicobacter py... 23 6.4
ref|NP_223038.1| putative [Helicobacter pylori J99] 23 6.4
ref|NP_223758.1| EXCINUCLEASE ABC SUBUNIT B [Helicobacter p... 22 8.3
ref|NP_223645.1| putative [Helicobacter pylori J99] 22 8.3
ref|NP_223560.1| putative [Helicobacter pylori J99] 22 8.3
ref|NP_223177.1| putative Glycolate oxidase [Helicobacter p... 22 8.3
ref|NP_223088.1| putative [Helicobacter pylori J99] 22 8.3
ref|NP_222961.1| putative [Helicobacter pylori J99] 22 8.3
>ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEASING FACTOR) (RRF)
[Helicobacter pylori J99]
Length = 185
Score = 352 bits (903), Expect = 4e-99
Identities = 182/185 (98%), Positives = 184/185 (99%)
Query: 1 MLQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSL 60
MLQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSL
Sbjct: 1 MLQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSL 60
Query: 61 DATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAM 120
DATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMT+EQRKLIAKDAKAM
Sbjct: 61 DATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTTEQRKLIAKDAKAM 120
Query: 121 GEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
GEKAKVAVRN RQDANN+VKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED
Sbjct: 121 GEKAKVAVRNTRQDANNKVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
Query: 181 AILKV 185
AILKV
Sbjct: 181 AILKV 185
>ref|NP_223617.1| putative [Helicobacter pylori J99]
Length = 500
Score = 32.0 bits (71), Expect = 0.010
Identities = 44/188 (23%), Positives = 79/188 (41%), Gaps = 28/188 (14%)
Query: 5 IYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLDATT 64
I E + K +QA +RD + V I+ H+K AL G + A T
Sbjct: 36 IKTEELEKTLKEMQAEDRD--------LKVGIIGHVKAGKSSLLNALIFEGVEVLPKAAT 87
Query: 65 -----LQISPWEKNLLKEIE----RSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAK 115
L I + L E+E + I E N+ E + F + E+ K K
Sbjct: 88 PMTASLTILKYANTLSAEVEFYSLKDIAELE------NEHEKYEREFNRIVEEEVKK-QK 140
Query: 116 DAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESV 175
+ +++ +AK +RN+ N + + + D+EI + + A+ +++K T + + D+
Sbjct: 141 EKQSLSNRAKEGIRNV---GNKMLGRNKSDEEIEKRAERIAKNELEKDT-KLVSSHDQYE 196
Query: 176 KNKEDAIL 183
K K+ L
Sbjct: 197 KIKKSGSL 204
Score = 25.8 bits (55), Expect = 0.75
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 127 AVRNIRQDANNQVKKLEKDKEIS---------EDESKKAQEQIQKITDEAIKKIDESVKN 177
A+RN+R + +K KE S E+ KKA ++ +KI + ++ ES N
Sbjct: 410 ALRNLRDSYPDAFSSDDKSKESSLFLINMGAIEERLKKAAQEKEKIMSQKLQNYAESQAN 469
>ref|NP_223234.1| putative [Helicobacter pylori J99]
Length = 366
Score = 30.0 bits (66), Expect = 0.040
Identities = 20/91 (21%), Positives = 43/91 (46%), Gaps = 8/91 (8%)
Query: 102 FPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQD----ANNQVKKLEKDKEISEDE----S 153
FP TSE + K+ + + K + V N+ ++ N KK+E ++ E
Sbjct: 181 FPLNTSEAFLELDKELRFLSHKKMIYVANVGEEDLNILNEHAKKVENHAKVQNSEFVALC 240
Query: 154 KKAQEQIQKITDEAIKKIDESVKNKEDAILK 184
K +E++ ++ + +K+ +S+ +E + K
Sbjct: 241 AKLEEEMVSMSGDEVKEFLQSLGVEESGLEK 271
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 29.6 bits (65), Expect = 0.052
Identities = 20/69 (28%), Positives = 34/69 (48%), Gaps = 2/69 (2%)
Query: 115 KDAKAMGEK-AKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITD-EAIKKID 172
KDA E+ K R+ D N V +KD + EDE + ++++ D + ++K+
Sbjct: 220 KDALINRERRVKELFRSFDDDDENSVSDPKKDDDSEEDEENEERKKVVSEKDKKRVEKVQ 279
Query: 173 ESVKNKEDA 181
ES K + A
Sbjct: 280 ESFKALDKA 288
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 29.3 bits (64), Expect = 0.068
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 149 SEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
S D KK +E TDEA++++DE +K +++
Sbjct: 310 STDTIKKMKEDYTNKTDEALERLDEIIKTEQN 341
Score = 27.3 bits (59), Expect = 0.26
Identities = 30/108 (27%), Positives = 52/108 (47%), Gaps = 19/108 (17%)
Query: 72 KNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKA-KVAVRN 130
KN + I+ I++AN + +N ETIK I K K+ E+ K +
Sbjct: 387 KNEIDAIKDLIKKANEQITNHN--ETIKD------------IEKQKKSCKEQTWKFLINE 432
Query: 131 IRQDANNQVKK---LEKDKEISEDESKKAQEQIQKITDEAIKKIDESV 175
+ D KK LEK E E + QE+++K+ +E IK++++++
Sbjct: 433 FKSDIQEYNKKYCGLEKGINNLEKEISENQEKVKKLENE-IKELEKNM 479
Score = 26.9 bits (58), Expect = 0.34
Identities = 16/62 (25%), Positives = 28/62 (44%), Gaps = 1/62 (1%)
Query: 122 EKAKVAVRNIRQDAN-NQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
E K + +R NQ K ++K KE+S + + + + IKK +E + N +
Sbjct: 350 ENLKRIIETLRSKIKANQQKMIDKSKEMSRNFKLDSNKNEIDAIKDLIKKANEQITNHNE 409
Query: 181 AI 182
I
Sbjct: 410 TI 411
Score = 24.6 bits (52), Expect = 1.7
Identities = 13/55 (23%), Positives = 31/55 (55%), Gaps = 9/55 (16%)
Query: 133 QDANNQVKKLEKDKEISEDESKKAQEQI---------QKITDEAIKKIDESVKNK 178
Q++ + +KK+++D DE+ + ++I K+ E +K+I E++++K
Sbjct: 308 QESTDTIKKMKEDYTNKTDEALERLDEIIKTEQNNSQTKLDTENLKRIIETLRSK 362
>ref|NP_223608.1| putative [Helicobacter pylori J99]
Length = 242
Score = 28.9 bits (63), Expect = 0.089
Identities = 19/58 (32%), Positives = 29/58 (49%), Gaps = 9/58 (15%)
Query: 105 MTSEQRKLIAKDAKAM---------GEKAKVAVRNIRQDANNQVKKLEKDKEISEDES 153
+ S Q + K AKA+ G+K VA + + Q+ V+K+EK I EDE+
Sbjct: 7 LLSVQENISHKKAKALIDSGLVSIGGQKLMVARKELPQNTRFSVQKVEKPSVIFEDEN 64
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 28.5 bits (62), Expect = 0.12
Identities = 26/88 (29%), Positives = 40/88 (44%), Gaps = 4/88 (4%)
Query: 92 NNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVK--KLEKDKEIS 149
++ G T L P+TS++ L KD + + E + N K KLE ++ S
Sbjct: 270 SHSGATENLTQKPLTSQEDLL--KDTENLNETTPKPTHLSPLELANAEKLAKLESEQLQS 327
Query: 150 EDESKKAQEQIQKITDEAIKKIDESVKN 177
E E KA+EQ K + KK++ N
Sbjct: 328 EQEFLKAKEQELKRKEALKKKLEHERGN 355
>ref|NP_222920.1| GLUCOSE INHIBITED DIVISION PROTEIN A [Helicobacter pylori J99]
Length = 621
Score = 28.5 bits (62), Expect = 0.12
Identities = 12/38 (31%), Positives = 25/38 (65%)
Query: 140 KKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKN 177
K+LEKDK+ ++ K+ +E + + E +K+++E +N
Sbjct: 461 KELEKDKQAIQENLKRLKECVLTPSKEVLKRLNELGEN 498
>ref|NP_222729.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 668
Score = 28.5 bits (62), Expect = 0.12
Identities = 22/86 (25%), Positives = 38/86 (43%), Gaps = 13/86 (15%)
Query: 13 MQKSIQALNRD---FSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLDATTLQISP 69
++++I ALN F T +L +D+ G+ + LN + ++ A+ SP
Sbjct: 377 VEETITALNNSLAHFGTQAEQIKQSELLARTILDFRGSLSNLNNTYNSITTTASNTPNSP 436
Query: 70 WEKNLLKEIERSIQEANIGVNPNNDG 95
+ KNL+ + NPNN G
Sbjct: 437 FLKNLISQ----------STNPNNPG 452
>ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter pylori J99]
Length = 171
Score = 28.1 bits (61), Expect = 0.15
Identities = 21/81 (25%), Positives = 46/81 (55%), Gaps = 5/81 (6%)
Query: 71 EKNLLKEIERSIQEANIGV-NPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVR 129
+K LLKE+E++ ++A + + + N + TI + T + + K++KA+ + + V+
Sbjct: 80 KKKLLKELEQAKEKAELIISDANKEAYTITQKYELQTKMDVENLIKNSKALMD---LEVK 136
Query: 130 NIRQDANNQV-KKLEKDKEIS 149
I+++ V K L + K++S
Sbjct: 137 KIKRELVESVFKDLRESKKVS 157
>ref|NP_223625.1| putative [Helicobacter pylori J99]
Length = 362
Score = 27.7 bits (60), Expect = 0.20
Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 138 QVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNK 178
Q ++EK +I E +++K+QE + +++AIKK E K+K
Sbjct: 250 QKSQIEKS-QIEEAQTQKSQEMKEAASEQAIKKPLEKEKDK 289
>ref|NP_223396.1| HIT FAMILY PROTEIN [Helicobacter pylori J99]
Length = 161
Score = 27.3 bits (59), Expect = 0.26
Identities = 12/34 (35%), Positives = 17/34 (49%)
Query: 68 SPWEKNLLKEIERSIQEANIGVNPNNDGETIKLF 101
+PW ++ LKE +S I NP D E L+
Sbjct: 6 APWRESYLKEKNKSCVFCGISQNPTKDSENRVLY 39
>ref|NP_223158.1| putative [Helicobacter pylori J99]
Length = 912
Score = 27.3 bits (59), Expect = 0.26
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Query: 104 PMTSEQRKLIAKDAKAMGEKAKVAVRNIR--QDAN-NQVKKLEKDKEISEDESKKAQEQI 160
P+TS++ L K+ + E + V+N+ + AN ++ KLE + ++SE E KA+EQ
Sbjct: 202 PLTSQEDLL--KNTELNNETTQ-EVKNLSLLEQANAEKLAKLESEAKVSEQEFLKAKEQE 258
Query: 161 QKITDEAIKKIDESVKN 177
K KK++ N
Sbjct: 259 AKRKVALKKKLEHERGN 275
>ref|NP_223195.1| cag island protein [Helicobacter pylori J99]
Length = 522
Score = 26.9 bits (58), Expect = 0.34
Identities = 16/63 (25%), Positives = 34/63 (53%), Gaps = 13/63 (20%)
Query: 131 IRQDANNQVKKLEKDKEISEDESKKAQEQIQKI----TDEAIK---------KIDESVKN 177
I+Q N++ ++E+ +++ E A +QI+++ +EA++ K D+S K+
Sbjct: 203 IKQQRENELDQMERLEDMQEQAQANALKQIEELNKKQAEEAVRQRAKDKISIKTDKSQKS 262
Query: 178 KED 180
ED
Sbjct: 263 PED 265
Score = 25.8 bits (55), Expect = 0.75
Identities = 12/37 (32%), Positives = 20/37 (53%)
Query: 133 QDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIK 169
++ Q K LEK+KE E K +++ +K +E K
Sbjct: 139 KELEEQKKALEKEKEAKEQAQKAQKDKREKRKEERAK 175
>ref|NP_223039.1| putative [Helicobacter pylori J99]
Length = 186
Score = 26.2 bits (56), Expect = 0.58
Identities = 17/57 (29%), Positives = 30/57 (51%), Gaps = 2/57 (3%)
Query: 129 RNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKEDAILKV 185
R IR++ N+ + KD + E S A+E I K +E+ K D + +N +D + +
Sbjct: 112 RQIRENLKNRSNR--KDAKNFEKLSNIAEEIISKKQEESHHKEDSNDENHKDKLSNI 166
>ref|NP_223388.1| putative [Helicobacter pylori J99]
Length = 192
Score = 25.8 bits (55), Expect = 0.75
Identities = 19/66 (28%), Positives = 39/66 (58%), Gaps = 8/66 (12%)
Query: 115 KDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDES 174
KD EK+ +++I ++A+ + +KL++ + +A E QK+ E++K++ ES
Sbjct: 6 KDIYLDVEKSIKDLQSIFKNADGRDEKLKRFNQ-------EALEVFQKLERESLKEL-ES 57
Query: 175 VKNKED 180
+KN E+
Sbjct: 58 LKNNEE 63
>ref|NP_223866.1| PERIPLASMIC CYTOCHROME C-553 [Helicobacter pylori J99]
Length = 96
Score = 25.4 bits (54), Expect = 0.98
Identities = 15/47 (31%), Positives = 22/47 (45%), Gaps = 10/47 (21%)
Query: 76 KEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGE 122
KEIE + G N N P MT++ +KL +D KA+ +
Sbjct: 54 KEIEEDLMAFKSGANKN----------PVMTAQAKKLSDEDIKALAK 90
>ref|NP_223200.1| cag island protein [Helicobacter pylori J99]
Length = 199
Score = 25.4 bits (54), Expect = 0.98
Identities = 15/61 (24%), Positives = 32/61 (51%), Gaps = 12/61 (19%)
Query: 105 MTSEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKIT 164
M++ RKL + A + +K K+ ++ L++++ ++ DE KK +QI+ +
Sbjct: 1 MSNNMRKLFSMIANSKDKKEKL------------IESLQENELLNTDEKKKIIDQIKTMH 48
Query: 165 D 165
D
Sbjct: 49 D 49
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 25.4 bits (54), Expect = 0.98
Identities = 14/43 (32%), Positives = 23/43 (52%)
Query: 132 RQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDES 174
+++A +VKK E + E + K+ QE + DE K DE+
Sbjct: 174 KEEAQEEVKKEEVKEMQEEVKEKQKQEVAENPQDEEKPKDDET 216
>ref|NP_222990.1| putative [Helicobacter pylori J99]
Length = 523
Score = 25.0 bits (53), Expect = 1.3
Identities = 24/97 (24%), Positives = 44/97 (44%), Gaps = 12/97 (12%)
Query: 82 IQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKK 141
++ N+ N + GE +KL +Q+ + A+ + AK++ + Q K+
Sbjct: 140 LKHENLKNNQTSLGEVLKLL------DQKHQLLNQWHALDKSAKLS----DEIYQTQAKR 189
Query: 142 LEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNK 178
LE +++ K QK +DEAI + VKN+
Sbjct: 190 LELQG--AQNILKTTIGIFQKDSDEAISIVKSQVKNQ 224
>ref|NP_223773.1| putative [Helicobacter pylori J99]
Length = 263
Score = 24.6 bits (52), Expect = 1.7
Identities = 25/115 (21%), Positives = 55/115 (47%), Gaps = 20/115 (17%)
Query: 76 KEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQR-KLIAKDAKAMG----------EKA 124
KE E+ + + N D + I L + SE++ + I K + G E+
Sbjct: 32 KEAEKILLDLN-----KKDEQAIDLNLEDLPSEKKNEKIEKVTEKQGDFLEPKEEPKEEP 86
Query: 125 KVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKE 179
+ ++ +I N+ +K DK +DE K QE+ +++ ++ +++ ++ +N+E
Sbjct: 87 EESLEDIFSSLNDFQEKT--DKNAQKDEQKNEQEEQRRLREQ--QRLKQNQENQE 137
Score = 22.3 bits (46), Expect = 8.3
Identities = 12/55 (21%), Positives = 27/55 (48%)
Query: 108 EQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQK 162
EQR+L + ++ + ++ ++Q+ N +KLE K + D Q+ + +
Sbjct: 119 EQRRLREQQRLKQNQENQEMLKGLQQNLNQFTQKLESVKNKTLDLQIPKQDGVDE 173
>ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pylori J99]
Length = 567
Score = 24.6 bits (52), Expect = 1.7
Identities = 41/191 (21%), Positives = 70/191 (36%), Gaps = 46/191 (24%)
Query: 7 NETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLDATTLQ 66
N T + K+I + +F TL +V + K+ + A L+
Sbjct: 341 NTTNYEVGKTISEIKGEFGTLVRLNAAVVVDGKYKI--------------ALEDGANALE 386
Query: 67 ISPWEKNLLKEIERSIQEANIGVNPNN-DGETIKLF-FPPMT------SEQRKLIAKDAK 118
P LK+I +++A IG N N D + F F PM + K++ K K
Sbjct: 387 YEPLSDESLKKINALVKQA-IGYNQNRGDDVAVSNFEFNPMAPMIDNATLSEKIMHKTQK 445
Query: 119 AMGEKA-----------------KVAVR------NIRQDANNQVKKLEKDKEISEDESKK 155
+G KV V + D + +VK + ++ + EDE K
Sbjct: 446 ILGSFTPLIKYILVFIVLFIFYKKVIVPFSERMLEVVPDEDKEVKSMFEEMDEEEDELNK 505
Query: 156 AQEQIQKITDE 166
+ +K+ D+
Sbjct: 506 LGDLRKKVEDQ 516
>ref|NP_222927.1| putative AMINOTRANSFERASE [Helicobacter pylori J99]
Length = 387
Score = 24.6 bits (52), Expect = 1.7
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 20 LNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGS 56
L+ + +T KV I+D D+YG P++L+Q G+
Sbjct: 7 LDNNATTRIDPKVK-EIMDPFLRDHYGNPSSLHQFGT 42
>ref|NP_223283.1| DNA MISMATCH REPAIR PROTEIN [Helicobacter pylori J99]
Length = 762
Score = 24.3 bits (51), Expect = 2.2
Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 3/75 (4%)
Query: 108 EQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEI---SEDESKKAQEQIQKIT 164
E + ++ K E + A++ N + ++EK KEI + E +K+ +Q I
Sbjct: 521 ENSSTLERELKQKNEHLENALKEQEDLKNAWLLEMEKQKEIFHHKKLELEKSYQQALNIL 580
Query: 165 DEAIKKIDESVKNKE 179
+ D S +KE
Sbjct: 581 KSEVASKDTSSMHKE 595
>ref|NP_223181.1| 50S RIBOSOMAL PROTEIN L9 [Helicobacter pylori J99]
Length = 149
Score = 24.3 bits (51), Expect = 2.2
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 122 EKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKI 171
+KAK+A + +VKK + + + + + + E +Q IT KK+
Sbjct: 34 QKAKLATNEVINKYKAEVKKKAEKEALEKAQKLQMVETLQTITLTIHKKV 83
>ref|NP_223108.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 455
Score = 24.3 bits (51), Expect = 2.2
Identities = 24/108 (22%), Positives = 49/108 (45%), Gaps = 14/108 (12%)
Query: 71 EKNLLKEIERSIQEAN--IGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAV 128
E++++ ++ +++E GV+ N T S+ + L+ KDA +
Sbjct: 73 EEDVVMQLSSTVEEMRKLAGVSSNQRNYTF--------SKNKTLLEKDAPLEDTPLEAN- 123
Query: 129 RNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVK 176
+QDA Q K E + + ++ + QE+ K + + KI +S+K
Sbjct: 124 ---KQDALLQALKDEANHKKEREKREVKQEEEIKDINAQLSKIRDSLK 168
>ref|NP_222831.1| putative [Helicobacter pylori J99]
Length = 412
Score = 24.3 bits (51), Expect = 2.2
Identities = 12/63 (19%), Positives = 33/63 (52%), Gaps = 7/63 (11%)
Query: 125 KVAVRNIRQDANNQVKKLEKDKEISEDESKKA-------QEQIQKITDEAIKKIDESVKN 177
++ + +++AN KLE++++ +E E +K +++ QK I+ + +K
Sbjct: 126 QIELEQEKKEANKSGIKLEQERQKTEQERQKTNKSEIELEQERQKTNKSGIELANSQIKA 185
Query: 178 KED 180
+++
Sbjct: 186 EQE 188
>ref|NP_224125.1| N-UTILIZATION SUBSTANCE PROTEIN A [Helicobacter pylori J99]
Length = 395
Score = 23.9 bits (50), Expect = 2.9
Identities = 10/47 (21%), Positives = 27/47 (57%)
Query: 134 DANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
+ N Q++ ++ + + +D+ + + + I+ K++D SVK K++
Sbjct: 48 EENKQLQLIQLVEVLEDDDERLVNDPSKYISLSKAKEMDPSVKIKDE 94
>ref|NP_223084.1| putative [Helicobacter pylori J99]
Length = 160
Score = 23.9 bits (50), Expect = 2.9
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 6/56 (10%)
Query: 127 AVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKI-DESVKNKEDA 181
AV+ DA + + DKEI+ +E KK + QK+ + ++ + ++ EDA
Sbjct: 38 AVKKTLNDAKDTL-----DKEINIEEIKKETLEYQKLFENKVESLKGVKIEELEDA 88
>ref|NP_222962.1| putative [Helicobacter pylori J99]
Length = 222
Score = 23.9 bits (50), Expect = 2.9
Identities = 13/47 (27%), Positives = 27/47 (56%), Gaps = 3/47 (6%)
Query: 138 QVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKN---KEDA 181
Q+ + E+ I + E+ + ++ + ++ K+IDE +KN KE+A
Sbjct: 43 QLSEKEQSLRILQTENARLLDEKSDLLNKKEKEIDEKLKNLAAKEEA 89
>ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) [Helicobacter pylori
J99]
Length = 606
Score = 23.5 bits (49), Expect = 3.7
Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 12/80 (15%)
Query: 107 SEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESK------------ 154
SE+ K + K+ ++G + + I++ NN+ K + DE +
Sbjct: 163 SEELKSVIKEVNSLGSQIAEINKRIKEVENNKSLKHANELRDKRDELEFHLRELLGGNVF 222
Query: 155 KAQEQIQKITDEAIKKIDES 174
K+ + +TD+ DES
Sbjct: 223 KSSIKTHSLTDKDSADFDES 242
>ref|NP_223321.1| GLU-TRNA AMIDOTRANSFERASE, SUBUNIT B [Helicobacter pylori J99]
Length = 474
Score = 23.5 bits (49), Expect = 3.7
Identities = 15/69 (21%), Positives = 30/69 (42%), Gaps = 10/69 (14%)
Query: 116 DAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESV 175
+ K G+ AK + + ++ V L + +S+ T+ +K I+E +
Sbjct: 379 EGKISGKSAKDVLDRLLEEQGGDVDTLIEQMGLSQVND----------TEAIVKVIEEVL 428
Query: 176 KNKEDAILK 184
KN D +L+
Sbjct: 429 KNNADKVLE 437
>ref|NP_223176.1| putative [Helicobacter pylori J99]
Length = 450
Score = 23.5 bits (49), Expect = 3.7
Identities = 20/75 (26%), Positives = 34/75 (44%), Gaps = 5/75 (6%)
Query: 108 EQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKE----ISEDESKKAQEQIQKI 163
E+RK + + K A+ R I+Q+A + KK + E + E +KA+ +
Sbjct: 240 EKRKEVRIEKKEERIDARENKREIKQEAIKEPKKANQGTENAPTLEEKNYQKAERKFD-A 298
Query: 164 TDEAIKKIDESVKNK 178
+E + DE K K
Sbjct: 299 KEERRRSRDERKKTK 313
>ref|NP_222823.1| 24kDa chaperone [Helicobacter pylori J99]
Length = 191
Score = 23.5 bits (49), Expect = 3.7
Identities = 19/80 (23%), Positives = 38/80 (46%), Gaps = 2/80 (2%)
Query: 107 SEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEIS-EDESKKAQEQIQKITD 165
SE+ I +D + ++ + + D N K+LE+DK ++ E +K + + D
Sbjct: 38 SEKEGEIKEDFELKYQEMREQYLRVHADFENVKKRLERDKSMALEYAYEKIALDLLPVID 97
Query: 166 EAIKKIDESVK-NKEDAILK 184
+ +V+ +KE A+ K
Sbjct: 98 ALLGAHKSAVEVDKESALTK 117
>ref|NP_223998.1| REPLICATIVE DNA HELICASE [Helicobacter pylori J99]
Length = 486
Score = 23.1 bits (48), Expect = 4.9
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 134 DANNQVKKLEKDKEISEDE 152
D N +K+ KDK+ISED+
Sbjct: 63 DENFIRQKMPKDKQISEDD 81
>ref|NP_223939.1| 50S RIBOSOMAL PROTEIN L15 [Helicobacter pylori J99]
Length = 133
Score = 22.7 bits (47), Expect = 6.4
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 104 PMTSEQRKLIAKDAKAMGEKAK 125
P+ E KLI KDAK + K K
Sbjct: 102 PLYIEGVKLIGKDAKNLASKIK 123
>ref|NP_223038.1| putative [Helicobacter pylori J99]
Length = 112
Score = 22.7 bits (47), Expect = 6.4
Identities = 12/57 (21%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 129 RNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKEDAILKV 185
+ I +++N +K ++ + +++S+K +EQ KI ++ + K + + + + LK+
Sbjct: 16 QTIHKNSNEAFQKTKR--ALFKEKSQKIREQAVKIVEKRLIKENMQLSDFNEEELKI 70
>ref|NP_223758.1| EXCINUCLEASE ABC SUBUNIT B [Helicobacter pylori J99]
Length = 658
Score = 22.3 bits (46), Expect = 8.3
Identities = 13/42 (30%), Positives = 22/42 (51%), Gaps = 1/42 (2%)
Query: 131 IRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKID 172
+R D K L+KDK + + E +K +++ K E K +D
Sbjct: 601 LRDDEIKIAKALKKDK-MPKSEREKIIKELDKKMRERAKNLD 641
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 22.3 bits (46), Expect = 8.3
Identities = 14/54 (25%), Positives = 25/54 (45%)
Query: 131 IRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKEDAILK 184
I + ++ EK+ E E K + +K + A K + ++ K DAIL+
Sbjct: 1458 IEELKEEELVNAEKNFERQELAYKNNPRETKKPNERAFKNKLDKIRAKYDAILE 1511
>ref|NP_223560.1| putative [Helicobacter pylori J99]
Length = 524
Score = 22.3 bits (46), Expect = 8.3
Identities = 12/45 (26%), Positives = 24/45 (52%)
Query: 134 DANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNK 178
+A ++K EK KEIS+++ K + + + + D++ NK
Sbjct: 337 NAPTPLEKEEKTKEISDNKEKAKETNSSAQSVQNTQASDKTSDNK 381
>ref|NP_223177.1| putative Glycolate oxidase [Helicobacter pylori J99]
Length = 459
Score = 22.3 bits (46), Expect = 8.3
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 72 KNLLKEIERSIQEANIGVNPNNDGETIKLFFPP 104
KNL+ +E + I + N+ E + LF+PP
Sbjct: 103 KNLIARVEPGV----INKHFQNEVEKLDLFYPP 131
>ref|NP_223088.1| putative [Helicobacter pylori J99]
Length = 289
Score = 22.3 bits (46), Expect = 8.3
Identities = 15/40 (37%), Positives = 20/40 (49%), Gaps = 1/40 (2%)
Query: 134 DANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDE 173
+ N + KD I +E K+AQ K +E KKIDE
Sbjct: 36 ETNTTEENTPKDAPILLEE-KRAQTLELKEENEVAKKIDE 74
>ref|NP_222961.1| putative [Helicobacter pylori J99]
Length = 142
Score = 22.3 bits (46), Expect = 8.3
Identities = 13/42 (30%), Positives = 23/42 (53%)
Query: 121 GEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQK 162
GE ++ + +D ++LEK K I E E +K +E ++K
Sbjct: 79 GENLTKDLKILEKDYLLANQELEKAKIILEKEKQKEKEILEK 120
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
0.309 0.127 0.327
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 180,584
Number of Sequences: 1491
Number of extensions: 7494
Number of successful extensions: 82
Number of sequences better than 10.0: 43
Number of HSP's better than 10.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 42
Number of HSP's gapped (non-prelim): 52
length of query: 185
length of database: 494,079
effective HSP length: 72
effective length of query: 113
effective length of database: 386,727
effective search space: 43700151
effective search space used: 43700151
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 46 (22.3 bits)