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|15645917|ref|NP_208096.1| ribosomal protein L6 (rpl6)
[Helicobacter pylori 26695]
(178 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223942.1| 50S RIBOSOMAL PROTEIN L6 [Helicobacter pyl... 340 1e-95
ref|NP_224209.1| putative O-SIALOGLYCOPROTEIN ENDOPEPTIDASE... 24 2.0
ref|NP_224194.1| putative [Helicobacter pylori J99] 23 4.6
ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylor... 23 4.6
ref|NP_224164.1| putative ATP-DEPENDENT HELICASE [Helicobac... 23 4.6
ref|NP_223717.1| PROTOPORPHYRINOGEN OXIDASE [Helicobacter p... 23 4.6
ref|NP_222738.1| putative [Helicobacter pylori J99] 23 4.6
ref|NP_223533.1| HOLLIDAY JUNCTION DNA HELICASE [Helicobact... 23 6.0
ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN... 23 6.0
ref|NP_223856.1| putative role in outermembrane permeabilit... 22 7.8
ref|NP_223325.1| RIBONUCLEASE III [Helicobacter pylori J99] 22 7.8
ref|NP_223247.1| putative SIDEROPHORE-MEDIATED IRON TRANSPO... 22 7.8
>ref|NP_223942.1| 50S RIBOSOMAL PROTEIN L6 [Helicobacter pylori J99]
Length = 178
Score = 340 bits (873), Expect = 1e-95
Identities = 172/178 (96%), Positives = 176/178 (98%)
Query: 1 MSRIGKRIIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQ 60
MSRIGKRIIEIPSSVQASVEGSKLLFKN+KEKHELETHNRVKITLENNQLSFQPVGEDAQ
Sbjct: 1 MSRIGKRIIEIPSSVQASVEGSKLLFKNNKEKHELETHNRVKITLENNQLSFQPVGEDAQ 60
Query: 61 SRAYWGTYGALANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGFSHPVKYPIPAG 120
RAYWGTYGALANNIVIGLS GFSKTLEVNGVGYKVALG+KTLDLSLGFSHPVKYPIPAG
Sbjct: 61 FRAYWGTYGALANNIVIGLSAGFSKTLEVNGVGYKVALGHKTLDLSLGFSHPVKYPIPAG 120
Query: 121 IEMVVEKNTITIKGSDKQKVGQVAAEIRSFRPPEPYKGKGVKYSDEVIIRKAGKTAKK 178
IEMVVEKNTITIKGSDKQ+VGQVAAEIRSFRPPEPYKGKGVKYS+EVIIRKAGKTAKK
Sbjct: 121 IEMVVEKNTITIKGSDKQQVGQVAAEIRSFRPPEPYKGKGVKYSNEVIIRKAGKTAKK 178
>ref|NP_224209.1| putative O-SIALOGLYCOPROTEIN ENDOPEPTIDASE [Helicobacter pylori
J99]
Length = 340
Score = 24.3 bits (51), Expect = 2.0
Identities = 21/89 (23%), Positives = 36/89 (39%), Gaps = 20/89 (22%)
Query: 71 LANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGFSHP---VKYPIPA-------- 119
+A ++ F K ++ +GY G L+L ++HP + +PIP
Sbjct: 154 VATSLDDSFGESFDKVSKMLDLGYPG--GPIVEKLALDYAHPNEPLMFPIPLKNSPNLAF 211
Query: 120 -------GIEMVVEKNTITIKGSDKQKVG 141
+ + VEKN + KQK+G
Sbjct: 212 SFSGLKNAVRLEVEKNAHNLNDEVKQKIG 240
>ref|NP_224194.1| putative [Helicobacter pylori J99]
Length = 185
Score = 23.1 bits (48), Expect = 4.6
Identities = 11/37 (29%), Positives = 18/37 (47%)
Query: 124 VVEKNTITIKGSDKQKVGQVAAEIRSFRPPEPYKGKG 160
V++ N KG D+ +V+ + R PE Y+ G
Sbjct: 51 VIQGNVQIKKGKDRLFADKVSVFLNDKRKPERYEATG 87
>ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 806
Score = 23.1 bits (48), Expect = 4.6
Identities = 14/48 (29%), Positives = 24/48 (49%)
Query: 5 GKRIIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSF 52
GKR E+ ++ AS E +L K EK+ + +I + N ++F
Sbjct: 756 GKRRAELKVNINASKEEIIILAKKELEKYLENASVKKEIYVPNKLVNF 803
>ref|NP_224164.1| putative ATP-DEPENDENT HELICASE [Helicobacter pylori J99]
Length = 946
Score = 23.1 bits (48), Expect = 4.6
Identities = 9/35 (25%), Positives = 19/35 (53%)
Query: 27 KNSKEKHELETHNRVKITLENNQLSFQPVGEDAQS 61
K S KH E + +V + + +L + + ++AQ+
Sbjct: 453 KTSNNKHVTEGYVKVSLVADEKELLLEQILQEAQN 487
>ref|NP_223717.1| PROTOPORPHYRINOGEN OXIDASE [Helicobacter pylori J99]
Length = 276
Score = 23.1 bits (48), Expect = 4.6
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 12 PSSVQASVEGSKLL-FKNSKEKHELETHNRVKITLENNQLSFQPVGE 57
P + +E LL F KE+ L TH ++++ E F+ VG+
Sbjct: 16 PKGFRGGLESEILLGFVLQKERVFLHTHEHLELSHEEETRFFELVGK 62
>ref|NP_222738.1| putative [Helicobacter pylori J99]
Length = 469
Score = 23.1 bits (48), Expect = 4.6
Identities = 14/44 (31%), Positives = 22/44 (49%), Gaps = 1/44 (2%)
Query: 55 VGEDAQSRAYWGTYGALANNIVIGLSTGFSKTLEVNGVGYKVAL 98
VG A + Y G G L ++ G+ST F+ T + +K+ L
Sbjct: 350 VGMQAVANYYLGFVGGLVTSLYSGVST-FADTRNTSIFAHKIYL 392
>ref|NP_223533.1| HOLLIDAY JUNCTION DNA HELICASE [Helicobacter pylori J99]
Length = 183
Score = 22.7 bits (47), Expect = 6.0
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 83 FSKTLEVNGVGYKVAL 98
F + L++NGVG ++AL
Sbjct: 71 FERLLKINGVGGRIAL 86
>ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN 3 (HAP3) [Helicobacter
pylori J99]
Length = 828
Score = 22.7 bits (47), Expect = 6.0
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 8 IIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLEN 47
+I + V ++ G L K+KH+L T N +K+ +N
Sbjct: 161 LISSDNLVPYNISGQDLFLGTDKDKHKLITTN-IKLLNQN 199
>ref|NP_223856.1| putative role in outermembrane permeability [Helicobacter pylori
J99]
Length = 766
Score = 22.3 bits (46), Expect = 7.8
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 71 LANNIVIGLSTGFSKTLEVNGVGYK 95
+ NN+V+ + G K + G+G++
Sbjct: 695 IRNNVVLNWNVGIYKKIRCFGIGFQ 719
>ref|NP_223325.1| RIBONUCLEASE III [Helicobacter pylori J99]
Length = 239
Score = 22.3 bits (46), Expect = 7.8
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 26 FKNSKEKHELETHNRVKITLENNQLSF 52
FK+ + + TH K+ L N +L F
Sbjct: 29 FKDKRLLEQALTHKSCKLALNNERLEF 55
>ref|NP_223247.1| putative SIDEROPHORE-MEDIATED IRON TRANSPORT PROTEIN [Helicobacter
pylori J99]
Length = 317
Score = 22.3 bits (46), Expect = 7.8
Identities = 11/32 (34%), Positives = 17/32 (52%)
Query: 23 KLLFKNSKEKHELETHNRVKITLENNQLSFQP 54
K + + E+ ++E VK + NQLSF P
Sbjct: 154 KKVVEQKVEQKKIEEKKPVKKEFDPNQLSFLP 185
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
0.312 0.132 0.364
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 177,515
Number of Sequences: 1491
Number of extensions: 7785
Number of successful extensions: 22
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 14
Number of HSP's gapped (non-prelim): 12
length of query: 178
length of database: 494,079
effective HSP length: 72
effective length of query: 106
effective length of database: 386,727
effective search space: 40993062
effective search space used: 40993062
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 46 (22.3 bits)