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= 024660
(264 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 = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 59/221 (26%), Positives = 92/221 (41%), Gaps = 35/221 (15%)
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 232
PE A + + L ARA+L YL + N++ AN
Sbjct: 167 PEVLARMEYEWYKQDESHTAPLYCARAVLPYLLVANVRAAN 207
>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 = 53.5 bits (127), 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 -KFASTIVNFMGKCYPGEDDLA---VARAILMYLSLGNMKDAN 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 = 52.8 bits (125), 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 -KFASTIVNFMGKCYPGEDDLA---VARAILMYLSLGNMKDAN 232
K+ + +++ + ED +R + YL + N+ A+
Sbjct: 158 IKYVDLLWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAH 200
>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 = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 176 ELDMARVSFHFVRGNNPEKFAST------IVNFMGKCYPGEDDLAVARAILMYLSL 225
+ +V +V G+ P K A+T + F G CY D+ + +A+ M S+
Sbjct: 48 HWGLGQVITDYVHGDTPIKVANTGLYVLSAITFTGLCYFNYYDVGICKAVAMLWSI 103
>pdb|4A20|A Chain A, Crystal Structure Of The Ubl Domain Of Mdy2 (get5) At
1.78a
Length = 98
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 30/54 (55%)
Query: 40 ISARYVAAQRYSEALDLLHAGACLQLKNNQLTCGAELAVSFVEALVKGKVAYDN 93
++ + + A ++S D + LQ+K + ++ +S ++ L+KGKV +DN
Sbjct: 22 LTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDN 75
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
0.319 0.134 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,092,060
Number of Sequences: 62578
Number of extensions: 261625
Number of successful extensions: 581
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 569
Number of HSP's gapped (non-prelim): 16
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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: 50 (23.9 bits)