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= 038237
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VG0|A Chain A, The Crystal Structures Of The Rep-1 Protein In Complex
With Monoprenylated Rab7 Protein
pdb|1VG9|A Chain A, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|C Chain C, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|E Chain E, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|G Chain G, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
Length = 650
Score = 31.6 bits (70), Expect = 0.27, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 26 YIN-REQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEI 73
Y N R+ DI+R C++ +P YV + G N ++A TLFQ+I
Sbjct: 548 YFNMRDSSDISRDCYNDLPSNVYVC-SGPDSGLGNDNAVKQAETLFQQI 595
>pdb|1LTX|R Chain R, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 650
Score = 31.6 bits (70), Expect = 0.27, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 26 YIN-REQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEI 73
Y N R+ DI+R C++ +P YV + G N ++A TLFQ+I
Sbjct: 548 YFNMRDSSDISRDCYNDLPSNVYVC-SGPDSGLGNDNAVKQAETLFQQI 595
>pdb|4PBG|A Chain A, 6-Phospho-Beta-Galactosidase Form-Cst
pdb|4PBG|B Chain B, 6-Phospho-Beta-Galactosidase Form-Cst
Length = 468
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 5 LEIFGTMKNKDVISYTAIVSGYINREQV----DIARQCFDQMPERDYVLWTT------MI 54
+E F T+ + D ++NRE + D A CF++ PE +Y WTT +
Sbjct: 108 VEPFVTLHHFDTPEALHSNGDFLNRENIEHFIDYAAFCFEEFPEVNY--WTTFNEIGPIG 165
Query: 55 DGYLRVNRFREAL 67
DG V +F +
Sbjct: 166 DGQYLVGKFPPGI 178
>pdb|1PBG|A Chain A, The Three-Dimensional Structure Of 6-Phospho-Beta
Galactosidase From Lactococcus Lactis
pdb|1PBG|B Chain B, The Three-Dimensional Structure Of 6-Phospho-Beta
Galactosidase From Lactococcus Lactis
pdb|3PBG|A Chain A, 6-Phospho-Beta-Galactosidase Form-C
pdb|3PBG|B Chain B, 6-Phospho-Beta-Galactosidase Form-C
Length = 468
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 5 LEIFGTMKNKDVISYTAIVSGYINREQV----DIARQCFDQMPERDYVLWTT------MI 54
+E F T+ + D ++NRE + D A CF++ PE +Y WTT +
Sbjct: 108 VEPFVTLHHFDTPEALHSNGDFLNRENIEHFIDYAAFCFEEFPEVNY--WTTFNEIGPIG 165
Query: 55 DGYLRVNRFREAL 67
DG V +F +
Sbjct: 166 DGQYLVGKFPPGI 178
>pdb|2PBG|A Chain A, 6-Phospho-Beta-D-Galactosidase Form-B
Length = 468
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 5 LEIFGTMKNKDVISYTAIVSGYINREQV----DIARQCFDQMPERDYVLWTT------MI 54
+E F T+ + D ++NRE + D A CF++ PE +Y WTT +
Sbjct: 108 VEPFVTLHHFDTPEALHSNGDFLNRENIEHFIDYAAFCFEEFPEVNY--WTTFNEIGPIG 165
Query: 55 DGYLRVNRFREAL 67
DG V +F +
Sbjct: 166 DGQYLVGKFPPGI 178
>pdb|1W7B|A Chain A, Annexin A2: Does It Induce Membrane Aggregation By A New
Multimeric State Of The Protein
Length = 339
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 54 IDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN 94
+ Y + R+AL + I+T + DE TIV+ILT R+N
Sbjct: 27 VKAYTNFDAERDALNIETAIKTKGV--DEVTIVNILTNRSN 65
>pdb|1XJL|A Chain A, Structure Of Human Annexin A2 In The Presence Of Calcium
Ions
pdb|1XJL|B Chain B, Structure Of Human Annexin A2 In The Presence Of Calcium
Ions
Length = 319
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 54 IDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN 94
+ Y + R+AL + I+T + DE TIV+ILT R+N
Sbjct: 7 VKAYTNFDAERDALNIETAIKTKGV--DEVTIVNILTNRSN 45
>pdb|2HYU|A Chain A, Human Annexin A2 With Heparin Tetrasaccharide Bound
pdb|2HYV|A Chain A, Human Annexin A2 With Heparin Hexasaccharide Bound
pdb|2HYW|A Chain A, Human Annexin A2 With Calcium Bound
pdb|2HYW|B Chain B, Human Annexin A2 With Calcium Bound
Length = 308
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 2/31 (6%)
Query: 64 REALTLFQEIQTSNIMGDEFTIVSILTARAN 94
R+AL + I+T + DE TIV+ILT R+N
Sbjct: 6 RDALNIETAIKTKGV--DEVTIVNILTNRSN 34
>pdb|2YK6|A Chain A, Structure Of Neisseria Los-Specific Sialyltransferase
(Nst), In Complex With Cdp
Length = 326
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 73 IQTSNIMGDEFTIVSILTARANLGALELGEW 103
IQ+S+ +GDEF++ T + N + +G+W
Sbjct: 123 IQSSSYLGDEFSVNG--TIKRNFARMMIGDW 151
>pdb|2YK7|A Chain A, Structure Of Neisseria Los-Specific Sialyltransferase
(Nst), In Complex With Cmp-3f-Neu5ac
Length = 326
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 73 IQTSNIMGDEFTIVSILTARANLGALELGEW 103
IQ+S+ +GDEF++ T + N + +G+W
Sbjct: 123 IQSSSYLGDEFSVNG--TIKRNFARMMIGDW 151
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.137 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,049,919
Number of Sequences: 62578
Number of extensions: 187120
Number of successful extensions: 501
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 501
Number of HSP's gapped (non-prelim): 11
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 48 (23.1 bits)