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|15644931|ref|NP_207101.1| GTP-binding protein (obg)
[Helicobacter pylori 26695]
(360 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|1LNZ|A Chain A, Structure Of The Obg Gtp-Binding Protei... 270 1e-73
pdb|1EGA|B Chain B, Crystal Structure Of A Widely Conserved... 32 0.086
pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Com... 30 0.56
pdb|1TOL|A Chain A, Fusion Of N-Terminal Domain Of The Mino... 29 0.73
pdb|1CK5|B Chain B, Ribosomal Protein L30-Mrna Complex From... 27 3.6
>pdb|1LNZ|A Chain A, Structure Of The Obg Gtp-Binding Protein
pdb|1LNZ|B Chain B, Structure Of The Obg Gtp-Binding Protein
Length = 342
Score = 270 bits (691), Expect = 1e-73
Identities = 143/306 (46%), Positives = 196/306 (63%), Gaps = 10/306 (3%)
Query: 2 FVDSVEIIIASGKGGPGMVSFRREKFVIKGGPDGGDGGDGGDVYFEVDNNTDTLASFRGT 61
FVD V++ + G GG G V+FRREK+V KGGP GGDGG GGDV FEVD TL FR
Sbjct: 2 FVDQVKVYVKGGDGGNGXVAFRREKYVPKGGPAGGDGGKGGDVVFEVDEGLRTLXDFRYK 61
Query: 62 KHHKAKNGAPGGTRNCAGKKGEDKIIVVPPGTQVFVGD--ELWLDLVEPKERVLALKGGK 119
KH KA G G ++N G+ +D +I VPPGT V D ++ DL E +R + +GG+
Sbjct: 62 KHFKAIRGEHGXSKNQHGRNADDXVIKVPPGTVVTDDDTKQVIADLTEHGQRAVIARGGR 121
Query: 120 GGLGNAHFKSATKQQPTYAQKGLEGVEKCVRLELKLIADIGLVGFPNAGKSTLISTISNA 179
GG GN+ F + P ++ G G E+ + LELK++AD+GLVGFP+ GKSTL+S +S+A
Sbjct: 122 GGRGNSRFATPANPAPQLSENGEPGKERYIVLELKVLADVGLVGFPSVGKSTLLSVVSSA 181
Query: 180 KPKIANYEFTTLVPNLGVVSVDEKSGFLMADIPGIIEGASEGKGLGISFLKHIERTKVLA 239
KPKIA+Y FTTLVPNLG V D+ F+ AD+PG+IEGA +G GLG FL+HIERT+V+
Sbjct: 182 KPKIADYHFTTLVPNLGXVETDDGRSFVXADLPGLIEGAHQGVGLGHQFLRHIERTRVIV 241
Query: 240 FVLDASRLD-LGIKEQYQRLRLELEKFSSALANKPFGVLLNKCD---VVENI----DEMT 291
V+D S L+ + Y + EL +++ L +P ++ NK D EN+ +++T
Sbjct: 242 HVIDXSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKXDXPEAAENLEAFKEKLT 301
Query: 292 KDFCAF 297
D+ F
Sbjct: 302 DDYPVF 307
>pdb|1EGA|B Chain B, Crystal Structure Of A Widely Conserved Gtpase Era
pdb|1EGA|A Chain A, Crystal Structure Of A Widely Conserved Gtpase Era
Length = 301
Score = 32.3 bits (72), Expect = 0.086
Identities = 43/204 (21%), Positives = 83/204 (40%), Gaps = 42/204 (20%)
Query: 159 IGLVGFPNAGKSTLISTISNAKPKIANYEFTTLVPNLGVVSVDEKSGFLMADIPGI--IE 216
I +VG PN GKSTL++ + K I + + T + + + + D PG+ E
Sbjct: 11 IAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEE 70
Query: 217 GASEGKGLGISFLKHIERTKVLAFVLDASRLDLGIKEQYQRLRLELEKFSSALANKPFGV 276
+ + + + I +++ FV++ +R + +LR P +
Sbjct: 71 KRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLR---------EGKAPVIL 121
Query: 277 LLNKCDVVENIDEMTKDFCAFLNLGAQKLNEFGLEPYLGFLHPHLTNDFENNPNEQSALF 336
+NK V+N+ E + L P+L FL ++ + L
Sbjct: 122 AVNK---VDNVQE-----------------KADLLPHLQFL-----------ASQMNFLD 150
Query: 337 VLPLSAVSALNVHALKFVLLEALP 360
++P+SA + LNV + ++ + LP
Sbjct: 151 IVPISAETGLNVDTIAAIVRKHLP 174
>pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2O|D Chain D, Crystal Structure Of The Sec23-Sar1 Complex
Length = 190
Score = 29.6 bits (65), Expect = 0.56
Identities = 33/133 (24%), Positives = 54/133 (39%), Gaps = 24/133 (18%)
Query: 162 VGFPNAGKSTLISTISNAKPKIANYEFTTLVPNLGVVSVDEKSG---FLMADIPGIIEGA 218
+G NAGK+TL+ + N + TL P S + G F D+ G I+
Sbjct: 29 LGLDNAGKTTLLHMLKNDR-------LATLQPTWHPTSEELAIGNIKFTTFDLGGHIQAR 81
Query: 219 SEGKGLGISFLKHIERTKVLAFVLDASRLDLGIKEQYQRLRLELEKF--SSALANKPFGV 276
K + + F++DA+ E++ R+EL+ + L + PF +
Sbjct: 82 RLWK-------DYFPEVNGIVFLVDAAD-----PERFDEARVELDALFNIAELKDVPFVI 129
Query: 277 LLNKCDVVENIDE 289
L NK D + E
Sbjct: 130 LGNKIDAPNAVSE 142
>pdb|1TOL|A Chain A, Fusion Of N-Terminal Domain Of The Minor Coat Protein From
Gene Iii In Phage M13, And C-Terminal Domain Of E. Coli
Protein-Tola
Length = 222
Score = 29.3 bits (64), Expect = 0.73
Identities = 16/54 (29%), Positives = 24/54 (43%), Gaps = 1/54 (1%)
Query: 31 GGPDGGDGGDGGDVYFEVDNNTDTLASFRGTKHHKAKNGAPGGTRNCAGKKGED 84
G GG G G D++ E+ + + + G K + A G T+N G G D
Sbjct: 76 GSEGGGSEGGGDDIFGELSSGKNAPKTGGGAKGNNASPAGSGNTKN-NGASGAD 128
>pdb|1CK5|B Chain B, Ribosomal Protein L30-Mrna Complex From Yeast
pdb|1CK8|B Chain B, Rpl30-Mrna Complex From Yeast
pdb|1CN8|A Chain A, Ribosomal Protein L30-Mrna Complex From Yeast
pdb|1CN9|A Chain A, Rpl30-Mrna Complex
pdb|1CK2|A Chain A, Yeast (Saccharomyces Cerevisiae) Ribosomal Protein L30
pdb|1CK9|A Chain A, Solution Structure Of Yeast Ribosomal Protein L30
pdb|1CN7|A Chain A, Yeast Ribosomal Protein L30
Length = 104
Score = 26.9 bits (58), Expect = 3.6
Identities = 14/46 (30%), Positives = 23/46 (49%)
Query: 80 KKGEDKIIVVPPGTQVFVGDELWLDLVEPKERVLALKGGKGGLGNA 125
++G+ K+I++ T V EL + K +V +GG LG A
Sbjct: 34 RQGKSKLIIIAANTPVLRKSELEYYAMLSKTKVYYFQGGNNELGTA 79
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
0.317 0.140 0.404
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,283,400
Number of Sequences: 13198
Number of extensions: 108384
Number of successful extensions: 184
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 177
Number of HSP's gapped (non-prelim): 7
length of query: 360
length of database: 2,899,336
effective HSP length: 89
effective length of query: 271
effective length of database: 1,724,714
effective search space: 467397494
effective search space used: 467397494
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: 55 (25.8 bits)