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|15645471|ref|NP_207645.1| hypothetical protein
[Helicobacter pylori 26695]
(313 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1JID|A Chain A, Human Srp19 In Complex With Helix 6 Of ... 27 2.3
pdb|1MFQ|B Chain B, Crystal Structure Analysis Of A Ternary... 27 2.3
pdb|1DT9|A Chain A, The Crystal Structure Of Human Eukaryot... 27 3.0
pdb|1CSJ|A Chain A, Crystal Structure Of The Rna-Dependent ... 26 6.7
pdb|1GX6|A Chain A, Hepatitis C Virus Rna Polymerase In Com... 26 6.7
pdb|1GX5|A Chain A, Hepatitis C Virus Rna Polymerase In Com... 26 6.7
pdb|1C2P|B Chain B, Hepatitis C Virus Ns5b Rna-Dependent Rn... 26 6.7
pdb|1QUV|A Chain A, Crystal Structure Of The Rna Directed R... 25 8.8
pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase Holoen... 25 8.8
>pdb|1JID|A Chain A, Human Srp19 In Complex With Helix 6 Of Human Srp Rna
Length = 128
Score = 27.3 bits (59), Expect = 2.3
Identities = 10/29 (34%), Positives = 16/29 (54%)
Query: 62 KGEELPFKKVQENPTLIALKDAAKELGLD 90
+G +P K ENPT ++D +GL+
Sbjct: 31 EGRRIPISKAVENPTATEIQDVCSAVGLN 59
>pdb|1MFQ|B Chain B, Crystal Structure Analysis Of A Ternary S-Domain Complex
Of Human Signal Recognition Particle
Length = 108
Score = 27.3 bits (59), Expect = 2.3
Identities = 10/29 (34%), Positives = 16/29 (54%)
Query: 62 KGEELPFKKVQENPTLIALKDAAKELGLD 90
+G +P K ENPT ++D +GL+
Sbjct: 19 EGRRIPISKAVENPTATEIQDVCSAVGLN 47
>pdb|1DT9|A Chain A, The Crystal Structure Of Human Eukaryotic Release Factor
Erf1-Mechanism Of Stop Codon Recognition And
Peptidyl-Trna Hydrolysis
Length = 437
Score = 26.9 bits (58), Expect = 3.0
Identities = 17/69 (24%), Positives = 30/69 (42%), Gaps = 2/69 (2%)
Query: 148 MVGVRFLHAELSNENLIAFSKKFDTLPIKLVSFELKKEISVHNCRECYFQAISNSSWANE 207
+ G ELS ++ F ++ + +KLV E + E + +SN + E
Sbjct: 226 LAGSADFKTELSQSDM--FDQRLQSKVLKLVDISYGGENGFNQAIELSTEVLSNVKFIQE 283
Query: 208 GYLVGRHID 216
L+GR+ D
Sbjct: 284 KKLIGRYFD 292
>pdb|1CSJ|A Chain A, Crystal Structure Of The Rna-Dependent Rna Polymerase Of
Hepatitis C Virus
pdb|1CSJ|B Chain B, Crystal Structure Of The Rna-Dependent Rna Polymerase Of
Hepatitis C Virus
Length = 531
Score = 25.8 bits (55), Expect = 6.7
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 3/47 (6%)
Query: 231 ASFGIGVIDLRTNEDKSAILLNAKYKEKIDYTVA---SELSAKNEKF 274
+ FG G D+R K+ +++ +K+ ++ TV + + AKNE F
Sbjct: 99 SKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVTPIDTTIXAKNEVF 145
>pdb|1GX6|A Chain A, Hepatitis C Virus Rna Polymerase In Complex With Utp And
Manganese
Length = 531
Score = 25.8 bits (55), Expect = 6.7
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 3/47 (6%)
Query: 231 ASFGIGVIDLRTNEDKSAILLNAKYKEKIDYTVA---SELSAKNEKF 274
+ FG G D+R K+ +++ +K+ ++ TV + + AKNE F
Sbjct: 99 SKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVTPIDTTIXAKNEVF 145
>pdb|1GX5|A Chain A, Hepatitis C Virus Rna Polymerase In Complex With Gtp And
Manganese
Length = 536
Score = 25.8 bits (55), Expect = 6.7
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 3/47 (6%)
Query: 231 ASFGIGVIDLRTNEDKSAILLNAKYKEKIDYTVA---SELSAKNEKF 274
+ FG G D+R K+ +++ +K+ ++ TV + + AKNE F
Sbjct: 99 SKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVTPIDTTIXAKNEVF 145
>pdb|1C2P|B Chain B, Hepatitis C Virus Ns5b Rna-Dependent Rna Polymerase
pdb|1C2P|A Chain A, Hepatitis C Virus Ns5b Rna-Dependent Rna Polymerase
Length = 576
Score = 25.8 bits (55), Expect = 6.7
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 3/47 (6%)
Query: 231 ASFGIGVIDLRTNEDKSAILLNAKYKEKIDYTVA---SELSAKNEKF 274
+ FG G D+R K+ +++ +K+ ++ TV + + AKNE F
Sbjct: 105 SKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVTPIDTTIXAKNEVF 151
>pdb|1QUV|A Chain A, Crystal Structure Of The Rna Directed Rna Polymerase Of
Hepatitis C Virus
Length = 578
Score = 25.4 bits (54), Expect = 8.8
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 3/47 (6%)
Query: 231 ASFGIGVIDLRTNEDKSAILLNAKYKEKIDYTVA---SELSAKNEKF 274
+ FG G D+R K+ +++ +K+ ++ TV + + AKNE F
Sbjct: 99 SKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVTPIDTTIMAKNEVF 145
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 25.4 bits (54), Expect = 8.8
Identities = 41/185 (22%), Positives = 74/185 (39%), Gaps = 23/185 (12%)
Query: 80 LKDAAKELGLDAQKISAPSSKIAHERDLHPFLTYMAINNENLKCYTKTIFHEESSKSIK- 138
L++ +EL L S P + HE P LT E + K EE ++IK
Sbjct: 78 LEEEEEELSLPKVSTSDPVRQYLHEIGQVPLLTL----EEEIDLARKV---EEGMEAIKK 130
Query: 139 -----GMDRWLYPDMVGVRFLHAELSNENLIAFSKKFDTLPIKLVSFELKKEISVHNCRE 193
G+D+ L ++V + L + + +K D ++ V +LK S+ +
Sbjct: 131 LSEATGLDQELIREVVRAKIL-GTARIQKIPGLKEKPDPKTVEEVDGKLK---SLPKELK 186
Query: 194 CYFQAISNSSWANEGYLVGRHIDTHNPQLMDLLKRLHASFGIGVIDLRTNEDKSAILLNA 253
Y A EG +H+ N +L+ + + + G+ +DL ++ I
Sbjct: 187 RYLHI------AREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVE 240
Query: 254 KYKEK 258
K++ K
Sbjct: 241 KFEYK 245
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.315 0.134 0.384
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,866,377
Number of Sequences: 13198
Number of extensions: 77091
Number of successful extensions: 221
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 218
Number of HSP's gapped (non-prelim): 9
length of query: 313
length of database: 2,899,336
effective HSP length: 88
effective length of query: 225
effective length of database: 1,737,912
effective search space: 391030200
effective search space used: 391030200
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)