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= 044946
(365 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M66|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 270
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 37/62 (59%), Gaps = 4/62 (6%)
Query: 248 RSYGFSKEECIEMIRTAPRLLSASEERLKSGLDFFLKKIEFG----KAVLVRMPCCMMYS 303
S FSK + +M+R AP LL+ S ERL + L FF K++E + ++VR+P + S
Sbjct: 84 HSKNFSKADVAQMVRKAPFLLNFSVERLDNRLGFFQKELELSVKKTRDLVVRLPRLLTGS 143
Query: 304 IE 305
+E
Sbjct: 144 LE 145
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 251 GFSKEECIEMIRTAPRLLSASEERLKSGLDFFLKKIEFGKAVLVRMP 297
GF E MI P++L+A++ +L DF + ++V+ P
Sbjct: 159 GFKHNEIQHMITRIPKMLTANKMKLTETFDFVHNVMSIPHHIIVKFP 205
>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 298
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 55/105 (52%), Gaps = 5/105 (4%)
Query: 206 LRQLVLRVLDMGFTTDS-RMFVHGLDALCRLSEKTFDRKLDLFRSYGFSKEECIEMIRTA 264
++Q++L + D+G + F+ A+ + ++ S FSK + +M+R A
Sbjct: 69 IKQMLLFLKDVGIEDNQLGAFLTKNHAIFSEDLENLKTRVAYLHSKNFSKADVAQMVRKA 128
Query: 265 PRLLSASEERLKSGLDFFLKKIEFG----KAVLVRMPCCMMYSIE 305
P LL+ S ERL + L FF K++E + ++VR+P + S+E
Sbjct: 129 PFLLNFSVERLDNRLGFFQKELELSVKKTRDLVVRLPRLLTGSLE 173
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 251 GFSKEECIEMIRTAPRLLSASEERLKSGLDFFLKKIEFGKAVLVRMP 297
GF E MI P++L+A++ +L DF + ++V+ P
Sbjct: 187 GFKHNEIQHMITRIPKMLTANKMKLTETFDFVHNVMSIPHHIIVKFP 233
>pdb|2C2B|A Chain A, Crystallographic Structure Of Arabidopsis Thaliana
Threonine Synthase Complexed With Pyridoxal Phosphate
And S-Adenosylmethionine
pdb|2C2B|B Chain B, Crystallographic Structure Of Arabidopsis Thaliana
Threonine Synthase Complexed With Pyridoxal Phosphate
And S-Adenosylmethionine
pdb|2C2B|C Chain C, Crystallographic Structure Of Arabidopsis Thaliana
Threonine Synthase Complexed With Pyridoxal Phosphate
And S-Adenosylmethionine
pdb|2C2B|D Chain D, Crystallographic Structure Of Arabidopsis Thaliana
Threonine Synthase Complexed With Pyridoxal Phosphate
And S-Adenosylmethionine
pdb|2C2B|E Chain E, Crystallographic Structure Of Arabidopsis Thaliana
Threonine Synthase Complexed With Pyridoxal Phosphate
And S-Adenosylmethionine
pdb|2C2B|F Chain F, Crystallographic Structure Of Arabidopsis Thaliana
Threonine Synthase Complexed With Pyridoxal Phosphate
And S-Adenosylmethionine
pdb|2C2G|A Chain A, Crystal Structure Of Threonine Synthase From Arabidopsis
Thaliana In Complex With Its Cofactor Pyridoxal
Phosphate
pdb|2C2G|B Chain B, Crystal Structure Of Threonine Synthase From Arabidopsis
Thaliana In Complex With Its Cofactor Pyridoxal
Phosphate
Length = 486
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 41/182 (22%), Positives = 77/182 (42%), Gaps = 35/182 (19%)
Query: 52 VISNQFSRIKTLEKPQTVSQFLHSVGFSDTHIQLAVHTK----PTILFADVNKTLKPKIA 107
V+ +Q +R++ +++P V S G DT L+ + P+I+F NK I+
Sbjct: 169 VLVSQVNRLRKMKRP-VVGVGCASTG--DTSAALSAYCASAGIPSIVFLPANK-----IS 220
Query: 108 YFQQLGLVGSDLGKFISNLERKLIPCVEILKKILAE--------------DSNNEDLIRV 153
Q + + + G F+ +++ C++++++I AE + I +
Sbjct: 221 MAQLVQPIAN--GAFVLSIDTDFDGCMKLIREITAELPIYLANSLNSLRLEGQKTAAIEI 278
Query: 154 IRRMSW---DLVVIDPEKSGLLRNIEYLKSCGIVGSQLSMLLVRLPRLFCFNDLKLRQLV 210
+++ W D V++ G L NI Y G Q L+ R+PR+ C L
Sbjct: 279 LQQFDWQVPDWVIV---PGGNLGNI-YAFYKGFKMCQELGLVDRIPRMVCAQAANANPLY 334
Query: 211 LR 212
L
Sbjct: 335 LH 336
>pdb|2OLC|A Chain A, Crystal Structure Of 5-Methylthioribose Kinase In Complex
With Adp-2ho
pdb|2OLC|B Chain B, Crystal Structure Of 5-Methylthioribose Kinase In Complex
With Adp-2ho
pdb|2PU8|A Chain A, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PU8|B Chain B, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUI|A Chain A, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUI|B Chain B, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUL|A Chain A, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUL|B Chain B, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUN|A Chain A, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUN|B Chain B, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUP|A Chain A, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
pdb|2PUP|B Chain B, Structures Of 5-Methylthioribose Kinase Reveal Substrate
Specificity And Unusual Mode Of Nucleotide Binding
Length = 397
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 79 SDTHIQLAVHTKPTILFADVNKTLKPKIAYFQQLGLVGSDLGKFISNL 126
++T I +HT K + P+ A++ G +G D+G+FI+NL
Sbjct: 226 AETLIHGDLHTGSIFASEHETKVIDPEFAFY---GPIGFDVGQFIANL 270
>pdb|3DRW|A Chain A, Crystal Structure Of A Phosphofructokinase From Pyrococcus
Horikoshii Ot3 With Amp
pdb|3DRW|B Chain B, Crystal Structure Of A Phosphofructokinase From Pyrococcus
Horikoshii Ot3 With Amp
Length = 474
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 41 ETVNIPKSRALVISNQFSRIKTLEKPQTVSQFLHSVG 77
ET+ IP S ++S +F I +E + + FL +G
Sbjct: 198 ETIEIPNSGRFIVSARFESISRIETREDIKPFLGEIG 234
>pdb|1U2X|A Chain A, Crystal Structure Of A Hypothetical Adp-Dependent
Phosphofructokinase From Pyrococcus Horikoshii Ot3
pdb|1U2X|B Chain B, Crystal Structure Of A Hypothetical Adp-Dependent
Phosphofructokinase From Pyrococcus Horikoshii Ot3
Length = 474
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 41 ETVNIPKSRALVISNQFSRIKTLEKPQTVSQFLHSVG 77
ET+ IP S ++S +F I +E + + FL +G
Sbjct: 198 ETIEIPNSGRFIVSARFESISRIETREDIKPFLGEIG 234
>pdb|3UAU|A Chain A, Crystal Structure Of The Lipoprotein Jlpa
pdb|3UAU|B Chain B, Crystal Structure Of The Lipoprotein Jlpa
Length = 379
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%)
Query: 98 VNKTLKPKIAYFQQLGLVGSDLGKFISNLERKLIPCVEILKKILAEDSNNE 148
+N+T+K +IA Q + + F N + I C+ K LA+D+N+E
Sbjct: 41 LNQTVKQEIASLSQDSGIKIEFSDFKCNADGDFIACLSPNFKTLAKDNNDE 91
>pdb|1TGZ|A Chain A, Structure Of Human Senp2 In Complex With Sumo-1
pdb|1TH0|A Chain A, Structure Of Human Senp2
pdb|1TH0|B Chain B, Structure Of Human Senp2
Length = 226
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 4/45 (8%)
Query: 150 LIRVIRRMSWDLVVIDPEKSGLLRNIEYLKSCGIVGSQLSMLLVR 194
L+ + R++ W LVVID K L +YL S G G ++ +L++
Sbjct: 107 LVPIHRKVHWSLVVIDLRKKCL----KYLDSMGQKGHRICEILLQ 147
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
0.325 0.140 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,502,480
Number of Sequences: 62578
Number of extensions: 361141
Number of successful extensions: 1212
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1195
Number of HSP's gapped (non-prelim): 19
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)