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= 026653
(235 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FWY|A Chain A, Crystal Structure Of The L Protein Of Rhodobacter
Sphaeroides Light- Independent Protochlorophyllide
Reductase (Bchl) With Mgadp Bound: A Homologue Of The
Nitrogenase Fe Protein
pdb|3FWY|B Chain B, Crystal Structure Of The L Protein Of Rhodobacter
Sphaeroides Light- Independent Protochlorophyllide
Reductase (Bchl) With Mgadp Bound: A Homologue Of The
Nitrogenase Fe Protein
Length = 314
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 29/59 (49%)
Query: 54 VYALLNCLITMWYGTPLVSADNILVTTVNSIGAAFQLVYIILFITYTEKDKKVRMLGLL 112
++ +L ++ + PL AD +V T N + + + II + K+ KVR+ G +
Sbjct: 168 IFDVLGDVVCGGFAAPLQHADQAVVVTANDFDSIYAMNRIIAAVQAKSKNYKVRLAGCV 226
>pdb|2YNM|A Chain A, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
pdb|2YNM|B Chain B, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
Length = 301
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 38 RIIRNHSTEEFSGLPYVYALLNCLITMWYGTPLVSADNILVTTVNSIGAAFQLVYIILFI 97
++++ H E + + ++ +L ++ + PL A+ L+ T N + F + I+ I
Sbjct: 139 KLLKEHHLLEDTDV-VIFDVLGDVVCGGFAAPLQHANYCLIVTANDFDSIFAMNRIVAAI 197
Query: 98 TYTEKDKKVRMLGLL 112
K+ KVR+ G++
Sbjct: 198 NAKAKNYKVRLGGVI 212
>pdb|2ACT|A Chain A, Crystallographic Refinement Of The Structure Of Actinidin
At 1.7 Angstroms Resolution By Fast Fourier
Least-Squares Methods
Length = 220
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 5 ITYQALTVLKDAVGIAGNIFAFGLFVSPVPT---FRRIIRNHSTEEFSGLPYVYALLNCL 61
+TYQ ++V DA G A +A G+F P T +I + TE G+ Y + + N
Sbjct: 128 VTYQPVSVALDAAGDAFKQYASGIFTGPCGTAVDHAIVIVGYGTE--GGVDY-WIVKNSW 184
Query: 62 ITMW 65
T W
Sbjct: 185 DTTW 188
>pdb|3BWQ|A Chain A, Structure Of Free Sv40 Vp1 Pentamer
pdb|3BWQ|B Chain B, Structure Of Free Sv40 Vp1 Pentamer
pdb|3BWQ|C Chain C, Structure Of Free Sv40 Vp1 Pentamer
pdb|3BWQ|D Chain D, Structure Of Free Sv40 Vp1 Pentamer
pdb|3BWQ|E Chain E, Structure Of Free Sv40 Vp1 Pentamer
pdb|3BWR|A Chain A, Sv40 Vp1 Pentamer In Complex With Gm1 Oligosaccharide
pdb|3BWR|B Chain B, Sv40 Vp1 Pentamer In Complex With Gm1 Oligosaccharide
pdb|3BWR|C Chain C, Sv40 Vp1 Pentamer In Complex With Gm1 Oligosaccharide
pdb|3BWR|D Chain D, Sv40 Vp1 Pentamer In Complex With Gm1 Oligosaccharide
pdb|3BWR|E Chain E, Sv40 Vp1 Pentamer In Complex With Gm1 Oligosaccharide
Length = 272
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%)
Query: 2 ILTITYQALTVLKDAVGIAGNIFAFGLFVSPVPTFRRIIRNHSTEEFSGLPYVYAL 57
+L IT A TVL D G+ A L+VS V T+++ GLP + +
Sbjct: 208 VLHITNTATTVLLDEQGVGPLCKADSLYVSAVDICGLFTNTSGTQQWKGLPRYFKI 263
>pdb|1AEC|A Chain A, Crystal Structure Of Actinidin-E-64 Complex+
Length = 218
Score = 26.9 bits (58), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 5 ITYQALTVLKDAVGIAGNIFAFGLFVSPVPT 35
+TYQ ++V DA G A ++ G+F P T
Sbjct: 128 VTYQPVSVALDAAGDAFKQYSSGIFTGPCGT 158
>pdb|1SVA|1 Chain 1, Simian Virus 40
pdb|1SVA|2 Chain 2, Simian Virus 40
pdb|1SVA|3 Chain 3, Simian Virus 40
pdb|1SVA|4 Chain 4, Simian Virus 40
pdb|1SVA|5 Chain 5, Simian Virus 40
pdb|1SVA|6 Chain 6, Simian Virus 40
Length = 361
Score = 26.9 bits (58), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%)
Query: 2 ILTITYQALTVLKDAVGIAGNIFAFGLFVSPVPTFRRIIRNHSTEEFSGLPYVYAL 57
+L IT A TVL D G+ A L+VS V T+++ GLP + +
Sbjct: 233 VLHITNTATTVLLDEQGVGPLCKADSLYVSAVDICGLFTNTSGTQQWKGLPRYFKI 288
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
0.329 0.144 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,735,962
Number of Sequences: 62578
Number of extensions: 200351
Number of successful extensions: 371
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 6
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.9 bits)