BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 046989
(146 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|B2UW00|GCP_HELPS Probable tRNA threonylcarbamoyladenosine biosynthesis protein Gcp
OS=Helicobacter pylori (strain Shi470) GN=gcp PE=3 SV=1
Length = 340
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 7 SGGHSCL---RDSDEARIRAKR--KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHSNK 61
SGGHS + RD ++ +I A F E + + +G G + E++ ++ H N+
Sbjct: 136 SGGHSLILEARDYEDIKIVATSLDDSFGESFDKVSKMLDLGYPGGPIVEKLALDYAHQNE 195
Query: 62 PISYAEHFRNSQ 73
P+ + +NSQ
Sbjct: 196 PLMFPIPLKNSQ 207
>sp|B5Z9L4|GCP_HELPG Probable tRNA threonylcarbamoyladenosine biosynthesis protein Gcp
OS=Helicobacter pylori (strain G27) GN=gcp PE=3 SV=1
Length = 340
Score = 32.7 bits (73), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 7 SGGHSCL---RDSDEARIRAKR--KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHSNK 61
SGGHS + RD ++ +I A F E + + +G G + E++ ++ H N+
Sbjct: 136 SGGHSLILEVRDYEDIKIVATSLDDSFGESFDKVSKMLDLGYPGGPIVEKLALDYAHPNE 195
Query: 62 PISYAEHFRNS 72
P+ + +NS
Sbjct: 196 PLMFPVPLKNS 206
>sp|Q9ZJ27|GCP_HELPJ Probable tRNA threonylcarbamoyladenosine biosynthesis protein Gcp
OS=Helicobacter pylori (strain J99) GN=gcp PE=3 SV=1
Length = 340
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 7 SGGHSCL---RDSDEARIRAKR--KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHSNK 61
SGGHS + RD ++ +I A F E + + +G G + E++ ++ H N+
Sbjct: 136 SGGHSLILEARDYEDIKIVATSLDDSFGESFDKVSKMLDLGYPGGPIVEKLALDYAHPNE 195
Query: 62 PISYAEHFRNS 72
P+ + +NS
Sbjct: 196 PLMFPIPLKNS 206
>sp|Q1R1P0|RECF_CHRSD DNA replication and repair protein RecF OS=Chromohalobacter
salexigens (strain DSM 3043 / ATCC BAA-138 / NCIMB
13768) GN=recF PE=3 SV=1
Length = 361
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 72 SQFVESILDVYRELPPVSGPSLTHQTRFDPARVCSPILEDGRN 114
+QF ++ D EL P+SG SL + +D R +LE GR+
Sbjct: 198 AQFAKAFEDTLHELLPLSGLSLRYYRGWDKQRGLLEVLEGGRD 240
>sp|B6JP93|GCP_HELP2 Probable tRNA threonylcarbamoyladenosine biosynthesis protein Gcp
OS=Helicobacter pylori (strain P12) GN=gcp PE=3 SV=1
Length = 340
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 7 SGGHSCL---RDSDEARIRAKR--KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHSNK 61
SGGHS + RD + +I A F E + + +G G + E++ ++ H N+
Sbjct: 136 SGGHSLILEARDYENIKIVATSLDDSFGESFDKVSKMLDLGYPGGPIVEKLALDYRHPNE 195
Query: 62 PISYAEHFRNS 72
P+ + +NS
Sbjct: 196 PLMFPVPLKNS 206
>sp|P55996|GCP_HELPY Probable tRNA threonylcarbamoyladenosine biosynthesis protein Gcp
OS=Helicobacter pylori (strain ATCC 700392 / 26695)
GN=gcp PE=3 SV=1
Length = 340
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 7 SGGHSCL---RDSDEARIRAKR--KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHSNK 61
SGGHS + RD + +I A F E + + +G G + E++ ++ H N+
Sbjct: 136 SGGHSLILEARDYENIKIVATSLDDSFGESFDKVSKMLDLGYPGGPIVEKLALDYRHPNE 195
Query: 62 PISYAEHFRNS 72
P+ + +NS
Sbjct: 196 PLMFPIPLKNS 206
>sp|Q17Z01|GCP_HELAH Probable tRNA threonylcarbamoyladenosine biosynthesis protein Gcp
OS=Helicobacter acinonychis (strain Sheeba) GN=gcp PE=3
SV=1
Length = 342
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 7 SGGHSCL---RDSDEARIRAKR--KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHSNK 61
SGGHS + R+ ++ +I A F E + + +G G V E++ ++ H N+
Sbjct: 136 SGGHSLILEARNYEDIKIMATSLDDSFGESFDKVSKMLNLGYPGGPVIEKLALDYAHKNE 195
Query: 62 PISYAEHFRNS 72
P+ + +NS
Sbjct: 196 PLMFPIPLKNS 206
>sp|Q3A9Q7|RPOB_CARHZ DNA-directed RNA polymerase subunit beta OS=Carboxydothermus
hydrogenoformans (strain Z-2901 / DSM 6008) GN=rpoB PE=3
SV=1
Length = 1132
Score = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 45 GWGVKEEMRGNFNHSNKPISYAEHFRNSQFVESILDVYREL----PPV--SGPSLTHQTR 98
G+ K + F+H +K I+ E E+++++Y++L PP S +L
Sbjct: 197 GYESKGRIAELFDHDDKIIATLERDNTDSREEALIEIYKKLRPGEPPTVESAKTLLDSMF 256
Query: 99 FDPARVCSPILEDGRNGLFQRL 120
FDP R + GR LF++L
Sbjct: 257 FDPKRY--DLGNVGRYKLFKKL 276
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.320 0.137 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 57,610,201
Number of Sequences: 539616
Number of extensions: 2304234
Number of successful extensions: 4914
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 4911
Number of HSP's gapped (non-prelim): 14
length of query: 146
length of database: 191,569,459
effective HSP length: 106
effective length of query: 40
effective length of database: 134,370,163
effective search space: 5374806520
effective search space used: 5374806520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)