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= 032325
(143 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3H0G|E Chain E, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|Q Chain Q, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 210
Score = 79.0 bits (193), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 43/131 (32%), Positives = 70/131 (53%), Gaps = 4/131 (3%)
Query: 1 MTLSDEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIA---KFGENMKREDLVIN 57
M+ ++ I R+FR +T Q++ DRGY V E++++ +QF A G N+ R L
Sbjct: 1 MSAEEKNIVRVFRAWKTAHQLVHDRGYGVSQAELDLTLDQFKAMHCGMGRNLDRTTLSFY 60
Query: 58 KALRNDSS-DQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQE 116
NDS+ IY+ F E VG+K M+T+ + + N IL+ ++TP A I
Sbjct: 61 AKPSNDSNKGTIYIEFAKEPSVGIKEMRTFVHTLGDHNHKTGILIYANSMTPSAAKIIAT 120
Query: 117 ISAKFHLEVFQ 127
++ +F +E FQ
Sbjct: 121 VTGQFTIETFQ 131
>pdb|1DZF|A Chain A, Rpb5 From S.Cerevisiae
pdb|1I3Q|E Chain E, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1I50|E Chain E, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I6H|E Chain E, Rna Polymerase Ii Elongation Complex
pdb|1K83|E Chain E, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
With The Inhibitor Alpha Amanitin
pdb|1NIK|E Chain E, Wild Type Rna Polymerase Ii
pdb|1NT9|E Chain E, Complete 12-Subunit Rna Polymerase Ii
pdb|1PQV|E Chain E, Rna Polymerase Ii-Tfiis Complex
pdb|1R5U|E Chain E, Rna Polymerase Ii Tfiib Complex
pdb|1SFO|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex
pdb|1R9S|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex,
Matched Nucleotide
pdb|1R9T|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex,
Mismatched Nucleotide
pdb|1TWA|E Chain E, Rna Polymerase Ii Complexed With Atp
pdb|1TWC|E Chain E, Rna Polymerase Ii Complexed With Gtp
pdb|1TWF|E Chain E, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
pdb|1TWG|E Chain E, Rna Polymerase Ii Complexed With Ctp
pdb|1TWH|E Chain E, Rna Polymerase Ii Complexed With 2'datp
pdb|1WCM|E Chain E, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
pdb|1Y1W|E Chain E, Complete Rna Polymerase Ii Elongation Complex
pdb|1Y77|E Chain E, Complete Rna Polymerase Ii Elongation Complex With
Substrate Analogue Gmpcpp
pdb|1Y1V|E Chain E, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|E Chain E, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
pdb|2B63|E Chain E, Complete Rna Polymerase Ii-Rna Inhibitor Complex
pdb|2B8K|E Chain E, 12-Subunit Rna Polymerase Ii
pdb|2E2H|E Chain E, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
pdb|2E2I|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dgtp
pdb|2E2J|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
Gmpcpp
pdb|2NVQ|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
2'dutp
pdb|2NVT|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Gmpcpp
pdb|2NVX|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dutp
pdb|2NVY|E Chain E, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
pdb|2NVZ|E Chain E, Rna Polymerase Ii Elongation Complex With Utp, Updated
112006
pdb|2JA5|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
A
pdb|2JA6|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
B
pdb|2JA7|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA7|Q Chain Q, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA8|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
D
pdb|2YU9|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Utp
pdb|2R7Z|E Chain E, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
Complex
pdb|2R92|E Chain E, Elongation Complex Of Rna Polymerase Ii With Artificial
Rdrp Scaffold
pdb|2R93|E Chain E, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
Delta Virus-Derived Rna Stem Loop
pdb|2VUM|E Chain E, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
Elongation Complex
pdb|3CQZ|E Chain E, Crystal Structure Of 10 Subunit Rna Polymerase Ii In
Complex With The Inhibitor Alpha-Amanitin
pdb|3FKI|E Chain E, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
pdb|3GTG|E Chain E, Backtracked Rna Polymerase Ii Complex With 12mer Rna
pdb|3GTJ|E Chain E, Backtracked Rna Polymerase Ii Complex With 13mer Rna
pdb|3GTK|E Chain E, Backtracked Rna Polymerase Ii Complex With 18mer Rna
pdb|3GTL|E Chain E, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
Mismatch
pdb|3GTM|E Chain E, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
pdb|3GTO|E Chain E, Backtracked Rna Polymerase Ii Complex With 15mer Rna
pdb|3GTP|E Chain E, Backtracked Rna Polymerase Ii Complex With 24mer Rna
pdb|3GTQ|E Chain E, Backtracked Rna Polymerase Ii Complex Induced By Damage
pdb|3H3V|F Chain F, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
Active Site
pdb|3HOU|E Chain E, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOU|Q Chain Q, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOV|E Chain E, Complete Rna Polymerase Ii Elongation Complex Ii
pdb|3HOW|E Chain E, Complete Rna Polymerase Ii Elongation Complex Iii With A
T-U Mismatch And A Frayed Rna 3'-Uridine
pdb|3HOX|E Chain E, Complete Rna Polymerase Ii Elongation Complex V
pdb|3HOY|E Chain E, Complete Rna Polymerase Ii Elongation Complex Vi
pdb|3HOZ|E Chain E, Complete Rna Polymerase Ii Elongation Complex Iv With A
T-U Mismatch And A Frayed Rna 3'-Guanine
pdb|3I4M|E Chain E, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex D
pdb|3I4N|E Chain E, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex E
pdb|3K1F|E Chain E, Crystal Structure Of Rna Polymerase Ii In Complex With
Tfiib
pdb|3K7A|E Chain E, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|3M3Y|E Chain E, Rna Polymerase Ii Elongation Complex C
pdb|3M4O|E Chain E, Rna Polymerase Ii Elongation Complex B
pdb|3PO2|E Chain E, Arrested Rna Polymerase Ii Elongation Complex
pdb|3PO3|E Chain E, Arrested Rna Polymerase Ii Reactivation Intermediate
pdb|3QT1|E Chain E, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
Subunit
pdb|3RZD|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
pdb|3RZO|E Chain E, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
pdb|3S14|E Chain E, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
pdb|3S15|E Chain E, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
pdb|3S16|E Chain E, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
pdb|3S17|E Chain E, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
pdb|3S1M|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 1)
pdb|3S1N|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 2)
pdb|3S1Q|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Atp
pdb|3S1R|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Gtp
pdb|3S2D|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
Containing A 5br- U
pdb|3S2H|E Chain E, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
Containing A 2[prime]-Iodo Atp
pdb|3J0K|E Chain E, Orientation Of Rna Polymerase Ii Within The Human
Vp16-Mediator-Pol Ii-Tfiif Assembly
pdb|4A3C|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid
pdb|4A3B|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid
pdb|4A3D|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid
pdb|4A3E|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3F|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3J|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid And Soaked With Gmpcpp
pdb|4A3K|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid
pdb|4A3L|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3M|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3G|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid
pdb|4A3I|E Chain E, Rna Polymerase Ii Binary Complex With Dna
pdb|4A93|E Chain E, Rna Polymerase Ii Elongation Complex Containing A Cpd
Lesion
pdb|4BBR|E Chain E, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|E Chain E, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 215
Score = 72.4 bits (176), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 43/121 (35%), Positives = 63/121 (52%), Gaps = 9/121 (7%)
Query: 8 IKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSSDQ 67
I RL+R RTV +M++DRGYF+ E+ + E F AK+ ++M R + N + +
Sbjct: 9 ISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEES 68
Query: 68 I---------YVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS 118
I +V F DE VGVKTMKT+ ++ +N I V Q N+TP A + I
Sbjct: 69 ISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIP 128
Query: 119 A 119
Sbjct: 129 P 129
>pdb|3C67|A Chain A, Escherichia Coli K12 Ygjk In A Complexed With Glucose
pdb|3C67|B Chain B, Escherichia Coli K12 Ygjk In A Complexed With Glucose
pdb|3C68|A Chain A, Escherichia Coli K12 Ygjk In A Complexed With Mannose
pdb|3C68|B Chain B, Escherichia Coli K12 Ygjk In A Complexed With Mannose
pdb|3C69|A Chain A, Escherichia Coli K12 Ygjk In A Complexed With Galactose
pdb|3C69|B Chain B, Escherichia Coli K12 Ygjk In A Complexed With Galactose
Length = 761
Score = 30.4 bits (67), Expect = 0.39, Method: Composition-based stats.
Identities = 18/88 (20%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 38 KEQFIAKFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFR 97
+ + KF EN ++ ++ +L +S DQ + D + M T + + +R
Sbjct: 525 RSDWTVKFAENRSQDGTLLGYSLLQESVDQASYMYSDNHYLA--EMATILGKPEEAKRYR 582
Query: 98 AILVVQQNLTPFARTCIQEISAKFHLEV 125
+ Q L + TC+ + + +F+ +V
Sbjct: 583 QL---AQQLADYINTCMFDPTTQFYYDV 607
>pdb|1EKF|A Chain A, Crystallographic Structure Of Human Branched Chain Amino
Acid Aminotransferase (Mitochondrial) Complexed With
Pyridoxal-5'- Phosphate At 1.95 Angstroms (Orthorhombic
Form)
pdb|1EKF|B Chain B, Crystallographic Structure Of Human Branched Chain Amino
Acid Aminotransferase (Mitochondrial) Complexed With
Pyridoxal-5'- Phosphate At 1.95 Angstroms (Orthorhombic
Form)
pdb|1EKP|A Chain A, Crystal Structure Of Human Branched Chain Amino Acid
Aminotransferase (Mitochondrial) Complexed With
Pyridoxal-5'-Phosphate At 2.5 Angstroms (Monoclinic
Form).
pdb|1EKP|B Chain B, Crystal Structure Of Human Branched Chain Amino Acid
Aminotransferase (Mitochondrial) Complexed With
Pyridoxal-5'-Phosphate At 2.5 Angstroms (Monoclinic
Form).
pdb|1EKV|A Chain A, Human Branched Chain Amino Acid Aminotransferase
(Mitochondrial): Three Dimensional Structure Of Enzyme
Inactivated By Tris Bound To The Pyridoxal-5'-Phosphate
On One End And Active Site Lys202 Nz On The Other.
pdb|1EKV|B Chain B, Human Branched Chain Amino Acid Aminotransferase
(Mitochondrial): Three Dimensional Structure Of Enzyme
Inactivated By Tris Bound To The Pyridoxal-5'-Phosphate
On One End And Active Site Lys202 Nz On The Other.
pdb|1KT8|A Chain A, Human Branched Chain Amino Acid Aminotransferase
(Mitochondrial): Three Dimensional Structure Of Enzyme
In Its Ketimine Form With The Substrate L-Isoleucine
pdb|1KT8|B Chain B, Human Branched Chain Amino Acid Aminotransferase
(Mitochondrial): Three Dimensional Structure Of Enzyme
In Its Ketimine Form With The Substrate L-Isoleucine
pdb|1KTA|A Chain A, Human Branched Chain Amino Acid Aminotransferase : Three
Dimensional Structure Of The Enzyme In Its Pyridoxamine
Phosphate Form.
pdb|1KTA|B Chain B, Human Branched Chain Amino Acid Aminotransferase : Three
Dimensional Structure Of The Enzyme In Its Pyridoxamine
Phosphate Form.
pdb|2A1H|A Chain A, X-Ray Crystal Structure Of Human Mitochondrial Branched
Chain Aminotransferase (Bcatm) Complexed With Gabapentin
pdb|2A1H|B Chain B, X-Ray Crystal Structure Of Human Mitochondrial Branched
Chain Aminotransferase (Bcatm) Complexed With Gabapentin
Length = 365
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 44 KFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAIL--- 100
K G N LV +AL+ ++++ PD Q V TM + + V +
Sbjct: 202 KLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQLTEVGTMNIFVYWTHEDGVLELVTPPL 261
Query: 101 -------VVQQNLTPFART 112
VV+Q+L A+T
Sbjct: 262 NGVILPGVVRQSLLDMAQT 280
>pdb|2HHF|B Chain B, X-ray Crystal Structure Of Oxidized Human Mitochondrial
Branched Chain Aminotransferase (hbcatm)
Length = 365
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 44 KFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAIL--- 100
K G N LV +AL+ ++++ PD Q V TM + + V +
Sbjct: 202 KLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQLTEVGTMNIFVYWTHEDGVLELVTPPL 261
Query: 101 -------VVQQNLTPFART 112
VV+Q+L A+T
Sbjct: 262 NGVILPGVVRQSLLDMAQT 280
>pdb|2HG8|A Chain A, Crystal Structure Of Cys315ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase Complexed
With Its Substrate Mimic, N-Methyl Leucine.
pdb|2HG8|B Chain B, Crystal Structure Of Cys315ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase Complexed
With Its Substrate Mimic, N-Methyl Leucine.
pdb|2HGX|A Chain A, Crystal Structure Of Cys315ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase
pdb|2HGX|B Chain B, Crystal Structure Of Cys315ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase
Length = 365
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 44 KFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAIL--- 100
K G N LV +AL+ ++++ PD Q V TM + + V +
Sbjct: 202 KLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQLTEVGTMNIFVYWTHEDGVLELVTPPL 261
Query: 101 -------VVQQNLTPFART 112
VV+Q+L A+T
Sbjct: 262 NGVILPGVVRQSLLDMAQT 280
>pdb|2HGW|A Chain A, Crystal Structure Of Cys318ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase
pdb|2HGW|B Chain B, Crystal Structure Of Cys318ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase
Length = 365
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 44 KFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAIL--- 100
K G N LV +AL+ ++++ PD Q V TM + + V +
Sbjct: 202 KLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQLTEVGTMNIFVYWTHEDGVLELVTPPL 261
Query: 101 -------VVQQNLTPFART 112
VV+Q+L A+T
Sbjct: 262 NGVILPGVVRQSLLDMAQT 280
>pdb|2HHF|A Chain A, X-ray Crystal Structure Of Oxidized Human Mitochondrial
Branched Chain Aminotransferase (hbcatm)
Length = 365
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 44 KFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAIL--- 100
K G N LV +AL+ ++++ PD Q V TM + + V +
Sbjct: 202 KLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQLTEVGTMNIFVYWTHEDGVLELVTPPL 261
Query: 101 -------VVQQNLTPFART 112
VV+Q+L A+T
Sbjct: 262 NGVILPGVVRQSLLDMAQT 280
>pdb|2HDK|A Chain A, Crystal Structure Of Cys315ala-Cys318ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase
pdb|2HDK|B Chain B, Crystal Structure Of Cys315ala-Cys318ala Mutant Of Human
Mitochondrial Branched Chain Aminotransferase
Length = 365
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 10/80 (12%)
Query: 44 KFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAIL--- 100
K G N LV +AL+ ++++ PD Q V TM + + V +
Sbjct: 202 KLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQLTEVGTMNIFVYWTHEDGVLELVTPPL 261
Query: 101 -------VVQQNLTPFARTC 113
VV+Q+L A+T
Sbjct: 262 NGVILPGVVRQSLLDMAQTW 281
>pdb|2WYA|A Chain A, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
pdb|2WYA|B Chain B, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
pdb|2WYA|C Chain C, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
pdb|2WYA|D Chain D, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
Length = 460
Score = 28.1 bits (61), Expect = 1.7, Method: Composition-based stats.
Identities = 27/126 (21%), Positives = 54/126 (42%), Gaps = 12/126 (9%)
Query: 13 RIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSSDQIYVFF 72
+I+ Q DR + + D + + F +++ R L+ N L S Q ++
Sbjct: 228 KIQNQWKQAGSDRPFTLDDLQYMIFHTPFCKMVQKSLAR--LMFNDFLSASSDTQTSLYK 285
Query: 73 PDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISAKFHLEVFQVNVFS 132
E G+K TYTN+ ++ +A+L Q++ ++ A +L N+++
Sbjct: 286 GLEAFGGLKLEDTYTNK----DLDKALLKASQDMFD------KKTKASLYLSTHNGNMYT 335
Query: 133 LMIYTC 138
+Y C
Sbjct: 336 SSLYGC 341
>pdb|2YA2|A Chain A, Catalytic Module Of The Multi-Modular Glycogen-Degrading
Pneumococcal Virulence Factor Spua In Complex With An
Inhibitor
Length = 708
Score = 27.3 bits (59), Expect = 2.6, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 63 DSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISAKFH 122
DSSD + F + G K Y +KS + + ++ ++Q+ F +Q+I + H
Sbjct: 557 DSSDAVNKFDWTKATDG----KAYPENVKSRDYMKGLIALRQSTDAFRLKSLQDIKDRVH 612
Query: 123 L 123
L
Sbjct: 613 L 613
>pdb|2YA1|A Chain A, Product Complex Of A Multi-Modular Glycogen-Degrading
Pneumococcal Virulence Factor Spua
Length = 1014
Score = 27.3 bits (59), Expect = 2.6, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 63 DSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISAKFH 122
DSSD + F + G K Y +KS + + ++ ++Q+ F +Q+I + H
Sbjct: 863 DSSDAVNKFDWTKATDG----KAYPENVKSRDYMKGLIALRQSTDAFRLKSLQDIKDRVH 918
Query: 123 L 123
L
Sbjct: 919 L 919
>pdb|2YA0|A Chain A, Catalytic Module Of The Multi-Modular Glycogen-Degrading
Pneumococcal Virulence Factor Spua
Length = 714
Score = 27.3 bits (59), Expect = 2.6, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 63 DSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISAKFH 122
DSSD + F + G K Y +KS + + ++ ++Q+ F +Q+I + H
Sbjct: 556 DSSDAVNKFDWTKATDG----KAYPENVKSRDYMKGLIALRQSTDAFRLKSLQDIKDRVH 611
Query: 123 L 123
L
Sbjct: 612 L 612
>pdb|4AG7|A Chain A, C. Elegans Glucosamine-6-Phosphate N-Acetyltransferase
(Gna1): Coenzyme A Adduct
pdb|4AG7|B Chain B, C. Elegans Glucosamine-6-Phosphate N-Acetyltransferase
(Gna1): Coenzyme A Adduct
pdb|4AG9|A Chain A, C. Elegans Glucosamine-6-Phosphate N-Acetyltransferase
(Gna1): Ternary Complex With Coenzyme A And Glcnac
pdb|4AG9|B Chain B, C. Elegans Glucosamine-6-Phosphate N-Acetyltransferase
(Gna1): Ternary Complex With Coenzyme A And Glcnac
Length = 165
Score = 27.3 bits (59), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 13/70 (18%)
Query: 40 QFIAKFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAI 99
+FI G + ED+V++ +R QK+G +KT + KS V++
Sbjct: 92 KFIHGAGSRGRVEDVVVDTEMR-------------RQKLGAVLLKTLVSLGKSLGVYKIS 138
Query: 100 LVVQQNLTPF 109
L L PF
Sbjct: 139 LECVPELLPF 148
>pdb|3D3I|A Chain A, Crystal Structural Of Escherichia Coli K12 Ygjk, A
Glucosidase Belonging To Glycoside Hydrolase Family 63
pdb|3D3I|B Chain B, Crystal Structural Of Escherichia Coli K12 Ygjk, A
Glucosidase Belonging To Glycoside Hydrolase Family 63
Length = 761
Score = 26.2 bits (56), Expect = 7.6, Method: Composition-based stats.
Identities = 20/88 (22%), Positives = 38/88 (43%), Gaps = 5/88 (5%)
Query: 38 KEQFIAKFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFR 97
+ + KF EN ++ ++ +L +S DQ + D + + T K E R
Sbjct: 525 RSDWTVKFAENRSQDGTLLGYSLLQESVDQASYXYSDNHYLA----EXATILGKPEEAKR 580
Query: 98 AILVVQQNLTPFARTCIQEISAKFHLEV 125
+ QQ L + TC + + +F+ +V
Sbjct: 581 YRQLAQQ-LADYINTCXFDPTTQFYYDV 607
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
0.328 0.139 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,475,409
Number of Sequences: 62578
Number of extensions: 119146
Number of successful extensions: 466
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 456
Number of HSP's gapped (non-prelim): 27
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
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: 46 (22.3 bits)