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|15646108|ref|NP_208290.1| hypothetical protein
[Helicobacter pylori 26695]
(272 letters)
Database: /home/scwang/download_20020708_db/nr
1,026,957 sequences; 324,149,939 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_208290.1| (NC_000915) hypothetical protein [Helicoba... 535 e-151
ref|NP_224110.1| (NC_000921) putative [Helicobacter pylori ... 458 e-128
ref|NP_349428.1| (NC_003030) N-terminal HKD family nuclease... 63 4e-09
ref|NP_602765.1| (NC_003454) DNA/RNA helicase (DEAD/DEAH BO... 56 4e-07
ref|NP_373013.1| (NC_002758) conserved hypothetical protein... 56 5e-07
ref|NP_377280.1| (NC_003106) 348aa long hypothetical protei... 55 8e-07
ref|NP_647226.1| (NC_003923) conserved hypothetical protein... 54 1e-06
ref|NP_616536.1| (NC_003552) hypothetical protein (multi-do... 50 2e-05
ref|NP_632298.1| (NC_003901) putative endonuclease [Methano... 47 2e-04
ref|NP_230461.1| (NC_002505) helicase-related protein [Vibr... 45 0.001
ref|NP_627092.1| (NC_003888) putative helicase [Streptomyce... 44 0.001
>ref|NP_208290.1| (NC_000915) hypothetical protein [Helicobacter pylori 26695]
pir||C64707 hypothetical protein HP1499 - Helicobacter pylori (strain 26695)
gb|AAD08545.1| (AE000648) H. pylori predicted coding region HP1499 [Helicobacter
pylori 26695]
Length = 272
Score = 535 bits (1379), Expect = e-151
Identities = 272/272 (100%), Positives = 272/272 (100%)
Query: 1 MSSVQILSNLNYPKVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVG 60
MSSVQILSNLNYPKVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVG
Sbjct: 1 MSSVQILSNLNYPKVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVG 60
Query: 61 LDFKTTDSKSIRFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGS 120
LDFKTTDSKSIRFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGS
Sbjct: 61 LDFKTTDSKSIRFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGS 120
Query: 121 TNLTKGGLENNFEVNTIFTEKKPLYYTQLNAIYNSIKYADSLFTPNEEYLQNYNEVFSAI 180
TNLTKGGLENNFEVNTIFTEKKPLYYTQLNAIYNSIKYADSLFTPNEEYLQNYNEVFSAI
Sbjct: 121 TNLTKGGLENNFEVNTIFTEKKPLYYTQLNAIYNSIKYADSLFTPNEEYLQNYNEVFSAI 180
Query: 181 IKNEQKVSKDKSIQEKIKEIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDIYQ 240
IKNEQKVSKDKSIQEKIKEIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDIYQ
Sbjct: 181 IKNEQKVSKDKSIQEKIKEIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDIYQ 240
Query: 241 ALEERIKKKSGDTNTKAILLGTLSGANSTTMC 272
ALEERIKKKSGDTNTKAILLGTLSGANSTTMC
Sbjct: 241 ALEERIKKKSGDTNTKAILLGTLSGANSTTMC 272
>ref|NP_224110.1| (NC_000921) putative [Helicobacter pylori J99]
pir||A71813 hypothetical protein jhp1392 - Helicobacter pylori (strain J99)
gb|AAD06973.1| (AE001561) putative [Helicobacter pylori J99]
Length = 306
Score = 458 bits (1178), Expect = e-128
Identities = 232/251 (92%), Positives = 243/251 (96%), Gaps = 2/251 (0%)
Query: 1 MSSVQILSNLNYP--KVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEII 58
MSSVQILSN NYP KVI EGLRNSL+THIAVAFLKYSGVE+IQD LI+ LEKGAEFEII
Sbjct: 1 MSSVQILSNFNYPISKVINEGLRNSLDTHIAVAFLKYSGVEIIQDVLINFLEKGAEFEII 60
Query: 59 VGLDFKTTDSKSIRFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSII 118
VGLDFKTTDSKSIRF LDLNKTYKKL+FYCYGDKENNKTDIVFHPKIYMFDNGKEKTSII
Sbjct: 61 VGLDFKTTDSKSIRFFLDLNKTYKKLKFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSII 120
Query: 119 GSTNLTKGGLENNFEVNTIFTEKKPLYYTQLNAIYNSIKYADSLFTPNEEYLQNYNEVFS 178
GS NLTKGGLENNFEVNTIFTEK+PLYY+QLNAIYNSIKYADSLFTPNEEYL++Y+EVFS
Sbjct: 121 GSANLTKGGLENNFEVNTIFTEKEPLYYSQLNAIYNSIKYADSLFTPNEEYLESYDEVFS 180
Query: 179 AIIKNEQKVSKDKSIQEKIKEIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDI 238
AIIKNEQKVSKDKSIQEKIK+IEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDI
Sbjct: 181 AIIKNEQKVSKDKSIQEKIKKIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDI 240
Query: 239 YQALEERIKKK 249
YQALEERIKK+
Sbjct: 241 YQALEERIKKE 251
>ref|NP_349428.1| (NC_003030) N-terminal HKD family nuclease fused to DNA/RNA
helicases of superfamily II,conserved in Streptomyces
[Clostridium acetobutylicum]
gb|AAK80768.1|AE007780_2 (AE007780) N-terminal HKD family nuclease fused to DNA/RNA
helicases of superfamily II,conserved in Streptomyces
[Clostridium acetobutylicum]
Length = 826
Score = 62.8 bits (151), Expect = 4e-09
Identities = 69/267 (25%), Positives = 113/267 (41%), Gaps = 36/267 (13%)
Query: 28 IAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKSIRFLLDLNKTYKKLRFY 87
I +AFL SGV++I L +++ KG I+ G T +++ L D K LRFY
Sbjct: 45 IIIAFLMESGVKLIVKNLKEAVNKGVPIRILTGNYLNITQPQALYLLKDELKGEVDLRFY 104
Query: 88 CYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGSTNLTKGGLENNFEVN-TIFTEKKPLYY 146
+K FHPK Y+F+ IGS+N+++ L E N I + +
Sbjct: 105 NIPNKS-------FHPKAYIFEYETGGDIFIGSSNISRSALTTGIEWNYRISKDAHSDDF 157
Query: 147 TQLNAIYNSIKYADSLFTPNEEYLQNYNE------VFSAIIKNEQKVSKDKSIQ------ 194
+ + + ++ + E LQ Y++ VFS I K E K K+ IQ
Sbjct: 158 KEYKRTFEDLFLNHTIIVDDNE-LQRYSKTWRRPRVFSDIEKLEDK-EKENVIQFPTPKA 215
Query: 195 ---EKIKEIEK--QEKLLPGTIPSIKAMIVEFIFACEKKGVKQVAL----QDIYQALEER 245
E + E++K +E G + + + ++ A + + K+V Q+I + E
Sbjct: 216 AQIEALYELKKSREEGFDRGIVVAATGIGKTYLAAFDSRSFKKVLFVAHRQEILEQAENA 275
Query: 246 IKKKSGDTNTKAILLGTLSGANSTTMC 272
K D+ T G SG + T C
Sbjct: 276 FKSVREDSAT-----GFFSGCDKATDC 297
>ref|NP_602765.1| (NC_003454) DNA/RNA helicase (DEAD/DEAH BOX family) [Fusobacterium
nucleatum subsp. nucleatum ATCC 25586]
gb|AAL94064.1| (AE010499) DNA/RNA helicase (DEAD/DEAH BOX family) [Fusobacterium
nucleatum subsp. nucleatum ATCC 25586]
Length = 942
Score = 56.2 bits (134), Expect = 4e-07
Identities = 53/191 (27%), Positives = 92/191 (47%), Gaps = 29/191 (15%)
Query: 28 IAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKSIRFLLDLNKTYKKLRFY 87
I+VAF+ G+ + + L + KG + +I+ G T+ K+++ LL +YK +
Sbjct: 52 ISVAFITMGGISLFLEELKNLENKGIKGKILTGDYLTFTEPKALKKLL----SYKNIDLK 107
Query: 88 CYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGSTNLTKGGLENNFE----VNTIFTEKKP 143
++++ H K Y F G T I+GS+NLT+G L NFE VN++ E
Sbjct: 108 VSTNRKH-------HTKAYFFRKGNVWTLIVGSSNLTQGALTVNFEWNIKVNSL--ENGK 158
Query: 144 LYYTQLNAIYNSIKYADSLFTPNEEYLQNYNEVFSAIIK----NEQKVSKDK----SIQ- 194
+ + L D+L T EE ++NY + + + K N Q + D+ S+Q
Sbjct: 159 IVKSVLETFNREF---DNLKTLTEEDIENYQKRYEQLKKLIEVNNQNLDLDEIKPNSMQV 215
Query: 195 EKIKEIEKQEK 205
+ +K +E+ K
Sbjct: 216 QALKNLEETRK 226
>ref|NP_373013.1| (NC_002758) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
ref|NP_375601.1| (NC_002745) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB43580.1| (AP003137) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB58651.1| (AP003365) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
Length = 443
Score = 55.8 bits (133), Expect = 5e-07
Identities = 62/259 (23%), Positives = 107/259 (40%), Gaps = 45/259 (17%)
Query: 16 ITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKSIRFLL 75
I + L+ + +VAF+ SG+ ++ L+D KG + +I+ K LL
Sbjct: 44 IIDELQKCETFYFSVAFITESGLASLKAQLLDLSNKGVKGKILTSNYLGFNSPKMYGELL 103
Query: 76 DLNKTYKKLRFYCYGDKENNKTDIV-FHPKIYMFDNGKEKTSIIGSTNLTKGGLENNFEV 134
L +L TDI FH K Y+F++ + +IGS+NLT L+ N+E
Sbjct: 104 KLKNVEVRL------------TDIAGFHAKGYIFEHKDYSSMVIGSSNLTSNALKVNYEH 151
Query: 135 NTIFTEKKPLYYTQLNAIYNSIKYADSLFTP-NEEYLQNYNEVFSAIIKNEQKVSKDKSI 193
N + + K ++++ N + TP E+++ +Y E F +
Sbjct: 152 NVLLSTMK--NGDLVDSVKNEFELLWQKSTPLTEQWINSYKESF------------EYRS 197
Query: 194 QEKIKEIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDIYQALEERIKKKSGDT 253
EK+ E+E+ + LL + KK V+ V ++ QA R K D
Sbjct: 198 LEKLAEVEQTQMLLADKV---------------KKSVEIV--PNLMQAEALRSLKAIRDK 240
Query: 254 NTKAILLGTLSGANSTTMC 272
L+ + +G T +C
Sbjct: 241 TKDKALIISATGTGKTILC 259
>ref|NP_377280.1| (NC_003106) 348aa long hypothetical protein [Sulfolobus tokodaii]
dbj|BAB66389.1| (AP000986) 348aa long hypothetical protein [Sulfolobus tokodaii]
Length = 348
Score = 55.1 bits (131), Expect = 8e-07
Identities = 44/132 (33%), Positives = 67/132 (50%), Gaps = 19/132 (14%)
Query: 10 LNYPKVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSK 69
+N + I G+R IAVA++K SGV + + L+ E II LDF T+ +
Sbjct: 20 INLLECIDSGVRA---VKIAVAYVKRSGV----NRFSEFLQNTKECLIITSLDFGITELE 72
Query: 70 SIRFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGSTNLTKGGLE 129
++ L K+L Y N+ FHPK+Y+ D G +K ++IGS+NL++G +
Sbjct: 73 GLKEL-------KRLGCNVYLYNGGNE----FHPKVYILDYGYKKIAVIGSSNLSEGAIT 121
Query: 130 -NNFEVNTIFTE 140
N E N I E
Sbjct: 122 GKNIEFNLIVEE 133
>ref|NP_647226.1| (NC_003923) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
dbj|BAB96274.1| (AP004830) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
Length = 951
Score = 54.3 bits (129), Expect = 1e-06
Identities = 61/259 (23%), Positives = 108/259 (41%), Gaps = 45/259 (17%)
Query: 16 ITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKSIRFLL 75
I + L+ + +VAF+ SG+ ++ L+D KG + +I+ K LL
Sbjct: 44 IIDELQKCETFYFSVAFITESGLASLKAQLLDLSNKGVKGKILTSNYLGFNSPKMYGELL 103
Query: 76 DLNKTYKKLRFYCYGDKENNKTDIV-FHPKIYMFDNGKEKTSIIGSTNLTKGGLENNFEV 134
L +L TDI FH K Y+F++ + +IGS+NLT L+ N+E
Sbjct: 104 KLKNVEVRL------------TDIAGFHAKGYIFEHKDYSSMVIGSSNLTSNALKVNYEH 151
Query: 135 NTIFTEKKPLYYTQLNAIYNSIKYADSLFTP-NEEYLQNYNEVFSAIIKNEQKVSKDKSI 193
N + + K ++++ N + TP ++++++Y E F +
Sbjct: 152 NVLLSTMK--NGDLVDSVKNEFELLWQKSTPLTQQWIKSYKESF------------EYRS 197
Query: 194 QEKIKEIEKQEKLLPGTIPSIKAMIVEFIFACEKKGVKQVALQDIYQALEERIKKKSGDT 253
EK+ E+E+ + LL + KK V+ V ++ QA R K D
Sbjct: 198 LEKLAEVEQTQMLLADKV---------------KKSVEIV--PNLMQAEALRSLKAIRDK 240
Query: 254 NTKAILLGTLSGANSTTMC 272
L+ + +G T +C
Sbjct: 241 AKDKALIISATGTGKTILC 259
>ref|NP_616536.1| (NC_003552) hypothetical protein (multi-domain) [Methanosarcina
acetivorans str. C2A] [Methanosarcina acetivorans C2A]
gb|AAM05016.1| (AE010831) hypothetical protein (multi-domain) [Methanosarcina
acetivorans str. C2A] [Methanosarcina acetivorans C2A]
Length = 809
Score = 50.4 bits (119), Expect = 2e-05
Identities = 52/188 (27%), Positives = 87/188 (45%), Gaps = 22/188 (11%)
Query: 28 IAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKSIRFLLDLNKTYKKLRFY 87
I+VAF+ SGV V+ +TL D ++G + II TD +++ LL +K +
Sbjct: 60 ISVAFITNSGVTVLLNTLSDLEQRGVKGRIIASQYQNFTDPTALKRLL----RFKNIELR 115
Query: 88 CYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGSTNLTKGGLENNFEVNTIFTEKKPLYYT 147
+ N H K Y+F KE + I+GS+NLT+ L N E N + +
Sbjct: 116 IVTEDVAN-----MHTKGYIFRKCKEYSIIVGSSNLTQNALCENKEWNLKVSSSR----- 165
Query: 148 QLNAIYNSIKYADSLF---TP-NEEYLQNYNEVFSAIIKNEQ--KVSKDKSIQE--KIKE 199
+YN + + +F TP ++ +L Y +++ ++E +S +K I + IK
Sbjct: 166 TGGIVYNVVSEFEIMFELATPVDDNWLAAYMKIYRTAKESEHIAALSVEKKIIQFSNIKP 225
Query: 200 IEKQEKLL 207
QE L
Sbjct: 226 NRMQESAL 233
>ref|NP_632298.1| (NC_003901) putative endonuclease [Methanosarcina mazei Goe1]
gb|AAM29970.1| (AE013252) putative endonuclease [Methanosarcina mazei Goe1]
Length = 155
Score = 47.0 bits (110), Expect = 2e-04
Identities = 32/124 (25%), Positives = 63/124 (50%), Gaps = 12/124 (9%)
Query: 11 NYPKVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKS 70
++ VI + + NS N A++ + + ++ L ++LE+G + EI + D T +++
Sbjct: 21 SFRSVINDLISNSTNELSLTAYV-LTDMSIVTK-LRNALERGVQVEIYLYEDEFATKNEA 78
Query: 71 IRFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKEKTSIIGSTNLTKGGLEN 130
+ ++ +L K + L+ Y DK + H K+ + D K + GS N T G+ N
Sbjct: 79 VNYIFNLQKEFSYLKIYRVEDK-------ILHAKVLVADG---KKVLSGSANFTFSGMTN 128
Query: 131 NFEV 134
N+E+
Sbjct: 129 NYEL 132
>ref|NP_230461.1| (NC_002505) helicase-related protein [Vibrio cholerae]
pir||H82276 helicase-related protein VC0812 [imported] - Vibrio cholerae (group
O1 strain N16961)
gb|AAF93976.1| (AE004166) helicase-related protein [Vibrio cholerae]
Length = 979
Score = 44.7 bits (104), Expect = 0.001
Identities = 40/175 (22%), Positives = 80/175 (44%), Gaps = 22/175 (12%)
Query: 16 ITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFEIIVGLDFKTTDSKSIRFLL 75
+ + + ++ I+V+F++ SG++++ D L D+++ GA+ +++ T ++R L+
Sbjct: 28 LVQAINHATEIEISVSFIQPSGLDLLFDPLFDAVQSGAQVKLLTSDYLSITHPVALRRLM 87
Query: 76 DLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMF---DNGK--EKTSIIGSTNLTKGGLEN 130
L + + R + G FH K Y+F + G+ E + IGS N++K L +
Sbjct: 88 LLTERGAQCRVFECGQHS-------FHMKSYIFVRCEQGEILEGCAWIGSNNISKTALLD 140
Query: 131 NFE------VNTIFTEKKPLYY----TQLNAIYNSIKYADSLFTPNEEYLQNYNE 175
+ E T L + Q +I+N D T + YL+ Y +
Sbjct: 141 SHEWALRHDFEPPETSAAALEFLHIRQQFASIFNHTNSKDLTHTWIDHYLERYQQ 195
>ref|NP_627092.1| (NC_003888) putative helicase [Streptomyces coelicolor A3(2)]
emb|CAB65593.1| (AL136058) putative helicase [Streptomyces coelicolor A3(2)]
Length = 945
Score = 44.3 bits (103), Expect = 0.001
Identities = 36/141 (25%), Positives = 65/141 (45%), Gaps = 15/141 (10%)
Query: 1 MSSVQILSN----LNYPKVITEGLRNSLNTHIAVAFLKYSGVEVIQDTLIDSLEKGAEFE 56
+S +L+N LN + L + + AF+K+ G+ V++D L+ + +G
Sbjct: 21 LSETSLLTNSPEDLNLGSELRAELATADRIDLLCAFVKWYGIRVLEDALLAAKARGVPIR 80
Query: 57 IIVGLDFKTTDSKSI-RFLLDLNKTYKKLRFYCYGDKENNKTDIVFHPKIYMFDNGKE-K 114
II TD +++ RF+ + T K + E T + H K ++F G
Sbjct: 81 IITTTYMGATDRRALDRFVREFGATVKV-------NYETRSTRL--HAKAWLFRRGTGFD 131
Query: 115 TSIIGSTNLTKGGLENNFEVN 135
T+ +GS+NL++ L + E N
Sbjct: 132 TAYVGSSNLSRAALLDGLEWN 152
Database: /home/scwang/download_20020708_db/nr
Posted date: Aug 7, 2002 12:55 PM
Number of letters in database: 324,149,939
Number of sequences in database: 1,026,957
Lambda K H
0.315 0.134 0.362
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 161,536,052
Number of Sequences: 1026957
Number of extensions: 6928719
Number of successful extensions: 29199
Number of sequences better than 1.0e-02: 11
Number of HSP's better than 0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 29190
Number of HSP's gapped (non-prelim): 11
length of query: 272
length of database: 324,149,939
effective HSP length: 119
effective length of query: 153
effective length of database: 201,942,056
effective search space: 30897134568
effective search space used: 30897134568
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 96 (41.6 bits)