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= 020832
(321 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LPZ|A Chain A, Crystal Structure Of C. Therm. Get4
Length = 336
Score = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 85/326 (26%), Positives = 145/326 (44%), Gaps = 54/326 (16%)
Query: 18 IDKLEKIVNEGN---FYGAQQMYKSISARYVAAQRYSEALDLLHAGACLQLKNNQLTCGA 74
I +L++ + EG Y A Q + ++ARY ++ A+D+L + + L++ Q G
Sbjct: 16 IARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASVSQTLLRSGQGGSGG 75
Query: 75 ELAVSFVEALVKGKVAYDNENLDRVRKIYELF-PQIPVPHNXXXXXXXXXXXXXXGAAKL 133
+LAV V+ + D + ++ LF P PV
Sbjct: 76 DLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKR------------------- 116
Query: 134 RVEGCSSFLKAAIKWSIEFGAPKTGSPELHVMLAEYLYSESPELDMARVSFHFVRGN--N 191
F+K I WS +FG G PELH ++ LY E E + A H V G +
Sbjct: 117 -------FVKEMIDWSKKFGDYPAGDPELHHVVGT-LYVEEGEFEAAEK--HLVLGTKES 166
Query: 192 PEKFASTIVNFMGKCYPGEDDLAVARAILMYLSLGNMKDAN---------YIMDEVKKQV 242
PE A + + L ARA+L YL + N++ AN + D V
Sbjct: 167 PEVLARMEYEWYKQDESHTAPLYCARAVLPYLLVANVRAANTAYRIFTSALVEDNKGLTV 226
Query: 243 EN-----KQLQLQPS-DLIQFVFYVLQTLERDALPLFNMLRANYKASI-EREPAFNEMLD 295
+N +L++ PS L+ F+ +L ++++ + LF L++ Y+A++ E ++ L+
Sbjct: 227 QNIGSQSAELRIFPSLPLLNFISMLLLSVQKGSPDLFRQLKSKYEANLNELNGIWDTALE 286
Query: 296 DIAEKFFGVKR---RNPMQGIFGDIF 318
IAE +FG++R NP+ + G +F
Sbjct: 287 LIAEMYFGIQRPRQSNPLLDMMGSLF 312
>pdb|2WPV|A Chain A, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|C Chain C, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|E Chain E, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|G Chain G, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
Length = 312
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/223 (22%), Positives = 89/223 (39%), Gaps = 35/223 (15%)
Query: 16 ENIDKLEKIVNEGNFYGAQQMYKSISARYVAAQRYSEALDLLHAGACLQLKNNQLTCGAE 75
+ + + E + G++Y A Q ++I+ RYV ++ Y A++L+ GA LK Q G +
Sbjct: 15 KTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTD 74
Query: 76 LAVSFVEALVKGKVAYDNENLDR-VRKIYELFPQIPVPHNXXXXXXXXXXXXXXGAAKLR 134
L +E +V D+ ++ R VR I EL P P
Sbjct: 75 LIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEP------------------------ 110
Query: 135 VEGCSSFLKAAIKWSIEFGAPKTGSPELHVMLAEYLYSESPELDMARVSFHFVRGNNPE- 193
+ WSI+F K G P LH + L + R +F+ G +
Sbjct: 111 --NLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAER---YFMLGTHDSM 165
Query: 194 -KFASTIVNFMGKCYPGEDDLAV---ARAILMYLSLGNMKDAN 232
K+ + +++ + ED +R + YL + N+ A+
Sbjct: 166 IKYVDLLWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAH 208
>pdb|3LKU|A Chain A, Crystal Structure Of S. Cerevisiae Get4 In Complex With An
N-Terminal Fragment Of Get5
pdb|3LKU|C Chain C, Crystal Structure Of S. Cerevisiae Get4 In Complex With An
N-Terminal Fragment Of Get5
pdb|3LKU|E Chain E, Crystal Structure Of S. Cerevisiae Get4 In Complex With An
N-Terminal Fragment Of Get5
Length = 292
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/223 (22%), Positives = 88/223 (39%), Gaps = 35/223 (15%)
Query: 16 ENIDKLEKIVNEGNFYGAQQMYKSISARYVAAQRYSEALDLLHAGACLQLKNNQLTCGAE 75
+ + + E + G++Y A Q ++I+ RYV ++ Y A++L+ GA LK Q G +
Sbjct: 7 KTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTD 66
Query: 76 LAVSFVEALVKGKVAYDNENLDR-VRKIYELFPQIPVPHNXXXXXXXXXXXXXXGAAKLR 134
L +E +V D+ ++ R VR I EL P P
Sbjct: 67 LIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEP------------------------ 102
Query: 135 VEGCSSFLKAAIKWSIEFGAPKTGSPELHVMLAEYLYSESPELDMARVSFHFVRGNNPE- 193
+ WSI+F K G P LH + L + R +F G +
Sbjct: 103 --NLKDVITGXNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAER---YFXLGTHDSX 157
Query: 194 -KFASTIVNFMGKCYPGEDDLAV---ARAILMYLSLGNMKDAN 232
K+ + +++ + ED +R + YL + N+ A+
Sbjct: 158 IKYVDLLWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAH 200
>pdb|3G8Q|A Chain A, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
pdb|3G8Q|B Chain B, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
pdb|3G8Q|C Chain C, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
pdb|3G8Q|D Chain D, A Cytidine Deaminase Edits C-To-U In Transfer Rnas In
Archaea
Length = 278
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 28/129 (21%), Positives = 52/129 (40%), Gaps = 12/129 (9%)
Query: 189 GNNPEKFASTIVNFMGKCYPGEDDLAVARAILMYLSLGNMKDANYIMDEVKKQVENKQLQ 248
G +P ++ F G Y E+D+A AR + G D + + +VE +
Sbjct: 113 GYDPVDRLDVLLTFGGNPYLTEEDVA-ARVYCLLTGRGFDADIAPAPENLSGRVEIMVTR 171
Query: 249 LQPSDLIQFVFYVLQTLERDALPLFNMLRANYKASIEREPAFNEMLDDIAEKF---FGVK 305
P + ++ + ++ LP+F + R +R+ +L+DI + F V+
Sbjct: 172 GDPDEAVELL--------KEELPVFRIRRFLISGEFDRDELRERILEDIEPRILDPFAVR 223
Query: 306 RRNPMQGIF 314
R G F
Sbjct: 224 ARIARAGAF 232
>pdb|1YQ3|D Chain D, Avian Respiratory Complex Ii With Oxaloacetate And
Ubiquinone
pdb|1YQ4|D Chain D, Avian Respiratory Complex Ii With 3-Nitropropionate And
Ubiquinone
pdb|2FBW|D Chain D, Avian Respiratory Complex Ii With Carboxin Bound
pdb|2FBW|Q Chain Q, Avian Respiratory Complex Ii With Carboxin Bound
pdb|2H88|D Chain D, Avian Mitochondrial Respiratory Complex Ii At 1.8 Angstrom
Resolution
pdb|2H88|Q Chain Q, Avian Mitochondrial Respiratory Complex Ii At 1.8 Angstrom
Resolution
pdb|2H89|D Chain D, Avian Respiratory Complex Ii With Malonate Bound
pdb|2WQY|D Chain D, Remodelling Of Carboxin Binding To The Q-Site Of Avian
Respiratory Complex Ii
pdb|2WQY|Q Chain Q, Remodelling Of Carboxin Binding To The Q-Site Of Avian
Respiratory Complex Ii
Length = 103
Score = 28.1 bits (61), Expect = 7.1, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 179 MARVSFHFVRGNNPEKFAST------IVNFMGKCYPGEDDLAVARAILMYLSL 225
+ +V +V G+ P K A+T + F G CY D+ + +A+ M S+
Sbjct: 51 LGQVITDYVHGDTPIKVANTGLYVLSAITFTGLCYFNYYDVGICKAVAMLWSI 103
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
0.320 0.136 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,658,286
Number of Sequences: 62578
Number of extensions: 326706
Number of successful extensions: 741
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 729
Number of HSP's gapped (non-prelim): 15
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
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: 51 (24.3 bits)