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= psy13086
(169 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CKK|A Chain A, Crystal Structure Of Human Methyltransferase-Like Protein
1
Length = 235
Score = 186 bits (473), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 107/216 (49%), Positives = 125/216 (57%), Gaps = 52/216 (24%)
Query: 1 MDWSPLYPEL----------------KDPTCEKKVEFVDVGCGKLYL-----PMFPSTLI 39
MDWS LYPE K+ + +VEF D+GCG L P+FP TLI
Sbjct: 14 MDWSELYPEFFAPLTQNQSHDDPKDKKEKRAQAQVEFADIGCGYGGLLVELSPLFPDTLI 73
Query: 40 LGLEIRVKVSDYVIDE------------------------------WSLYLKKMFFLYPD 69
LGLEIRVKVSDYV D + L KMFFL+PD
Sbjct: 74 LGLEIRVKVSDYVQDRIRALRAAPAGGFQNIACLRSNAMKHLPNFFYKGQLTKMFFLFPD 133
Query: 70 PHFKRCKYKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLE 129
PHFKR K+KWRII+ LL+EYAYVL GG+VYTITDV +LHDW+ +HF EHPLF LE
Sbjct: 134 PHFKRTKHKWRIISPTLLAEYAYVLRVGGLVYTITDVLELHDWMCTHFEEHPLFERVPLE 193
Query: 130 ELKRTDPVVDKLYQSTEEGQKVTRNKGEKFCAVFRR 165
+L DPVV L STEEG+KV RN G+ F A+FRR
Sbjct: 194 DLSE-DPVVGHLGTSTEEGKKVLRNGGKNFPAIFRR 228
>pdb|2VDU|E Chain E, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
Complex
pdb|2VDU|F Chain F, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
Complex
Length = 254
Score = 160 bits (405), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 95/205 (46%), Positives = 113/205 (55%), Gaps = 41/205 (20%)
Query: 1 MDWSPLYPELKDP---TCEKKVEFVDVGCGKLYL-----PMFPSTLILGLEIRVKVSDYV 52
MDWS LYP K+ KKV D+GCG L P FP LILG+EIRV+V++YV
Sbjct: 38 MDWSKLYPYYKNAENGQMTKKVTIADIGCGFGGLMIDLSPAFPEDLILGMEIRVQVTNYV 97
Query: 53 IDEW--------------------------------SLYLKKMFFLYPDPHFKRCKYKWR 80
D L KMFF +PDPHFK+ K+K R
Sbjct: 98 EDRIIALRNNTASKHGFQNINVLRGNAMKFLPNFFEKGQLSKMFFCFPDPHFKQRKHKAR 157
Query: 81 IINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLEELKRTDPVVDK 140
II LLSEYAYVL EGG+VYTITDVKDLH+W+V H EHPLF +E + D V
Sbjct: 158 IITNTLLSEYAYVLKEGGVVYTITDVKDLHEWMVKHLEEHPLFERLS-KEWEENDECVKI 216
Query: 141 LYQSTEEGQKVTRNKGEKFCAVFRR 165
+ +TEEG+KV R KG+KF A F R
Sbjct: 217 MRNATEEGKKVERKKGDKFVACFTR 241
>pdb|2VDV|E Chain E, Structure Of Trm8, M7g Methylation Enzyme
pdb|2VDV|F Chain F, Structure Of Trm8, M7g Methylation Enzyme
Length = 246
Score = 160 bits (404), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 95/205 (46%), Positives = 113/205 (55%), Gaps = 41/205 (20%)
Query: 1 MDWSPLYPELKDP---TCEKKVEFVDVGCGKLYL-----PMFPSTLILGLEIRVKVSDYV 52
MDWS LYP K+ KKV D+GCG L P FP LILG+EIRV+V++YV
Sbjct: 30 MDWSKLYPYYKNAENGQMTKKVTIADIGCGFGGLMIDLSPAFPEDLILGMEIRVQVTNYV 89
Query: 53 IDEW--------------------------------SLYLKKMFFLYPDPHFKRCKYKWR 80
D L KMFF +PDPHFK+ K+K R
Sbjct: 90 EDRIIALRNNTASKHGFQNINVLRGNAMKFLPNFFEKGQLSKMFFCFPDPHFKQRKHKAR 149
Query: 81 IINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLEELKRTDPVVDK 140
II LLSEYAYVL EGG+VYTITDVKDLH+W+V H EHPLF +E + D V
Sbjct: 150 IITNTLLSEYAYVLKEGGVVYTITDVKDLHEWMVKHLEEHPLFERLS-KEWEENDECVKI 208
Query: 141 LYQSTEEGQKVTRNKGEKFCAVFRR 165
+ +TEEG+KV R KG+KF A F R
Sbjct: 209 MRNATEEGKKVERKKGDKFVACFTR 233
>pdb|2FCA|A Chain A, The Structure Of Bstrmb
pdb|2FCA|B Chain B, The Structure Of Bstrmb
Length = 213
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 51/103 (49%), Gaps = 11/103 (10%)
Query: 60 LKKMFFLYPDPHFKRCKYKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTE 119
+K+++ + DP K+ K R+ + L +Y V+ +GG ++ TD + L ++ + F+E
Sbjct: 109 VKRVYLNFSDPWPKKRHEKRRLTYSHFLKKYEEVMGKGGSIHFKTDNRGLFEYSLKSFSE 168
Query: 120 HPLFVECDLEELKRTDPVVDKLYQSTEEGQKVTRNKGEKFCAV 162
+ L + V L+ S EG +T + EKF A+
Sbjct: 169 YGLLLTY----------VSLDLHNSNLEGNIMTEYE-EKFSAL 200
>pdb|1GZ3|A Chain A, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|B Chain B, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|C Chain C, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|D Chain D, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
Length = 554
Score = 33.1 bits (74), Expect = 0.082, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 11/70 (15%)
Query: 27 GKLYLPMFPSTLILGLEIRVKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKYKWRIINQNL 86
G+LY P+ + + + I +KV++Y LY KM F+YP+P + KY + Q
Sbjct: 491 GRLYPPL-ANIQEVSINIAIKVTEY------LYANKMAFVYPEPE-DKAKY---VKEQTW 539
Query: 87 LSEYAYVLSE 96
SEY +L +
Sbjct: 540 RSEYDSLLPD 549
>pdb|3H0L|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|E Chain E, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|H Chain H, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|K Chain K, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|N Chain N, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|Q Chain Q, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|T Chain T, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|W Chain W, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|E Chain E, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|H Chain H, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|K Chain K, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|N Chain N, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|Q Chain Q, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|T Chain T, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|W Chain W, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|E Chain E, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|H Chain H, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|K Chain K, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|N Chain N, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|Q Chain Q, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|T Chain T, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|W Chain W, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
Length = 478
Score = 30.4 bits (67), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 27/68 (39%), Gaps = 11/68 (16%)
Query: 52 VIDEWSLYLKKMFFLYPDPHFKRCKYKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLHD 111
V EW +KK PD F+R L+ EY E GI+ +V D +
Sbjct: 283 VKKEWIEEIKKNMPELPDQRFER-----------LIKEYGLSEYEAGILVNHKEVGDFFE 331
Query: 112 WIVSHFTE 119
V HF E
Sbjct: 332 EAVRHFKE 339
>pdb|1JA9|A Chain A, Crystal Structure Of 1,3,6,8-Tetrahydroxynaphthalene
Reductase In Complex With Nadph And Pyroquilon
Length = 274
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 104 TDVKDLHDWIVSHF-------TEHPLFVECDLEELKRTDPVVDKLYQSTEEGQKVTRNKG 156
++V L D VSHF + + V CD EL+ T + DK++ GQ +G
Sbjct: 84 SEVVALFDKAVSHFGGLDFVMSNSGMEVWCD--ELEVTQELFDKVFNLNTRGQFFVAQQG 141
Query: 157 EKFCAVFRRGRHV 169
K C RRG +
Sbjct: 142 LKHC---RRGGRI 151
>pdb|1QR6|A Chain A, Human Mitochondrial Nad(P)-Dependent Malic Enzyme
pdb|1QR6|B Chain B, Human Mitochondrial Nad(P)-Dependent Malic Enzyme
Length = 584
Score = 28.1 bits (61), Expect = 2.6, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 12/67 (17%)
Query: 27 GKLYLPMFPSTLILGLEIRVKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKY----KWRII 82
G+LY P+ + + + I +KV++Y LY K F YP+P + KY WR
Sbjct: 510 GRLYPPL-ANIQEVSINIAIKVTEY------LYANKXAFRYPEPE-DKAKYVKERTWRSE 561
Query: 83 NQNLLSE 89
+LL +
Sbjct: 562 YDSLLPD 568
>pdb|1EFK|A Chain A, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFK|B Chain B, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFK|C Chain C, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFK|D Chain D, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFL|A Chain A, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1EFL|B Chain B, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1EFL|C Chain C, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1EFL|D Chain D, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1PJL|A Chain A, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|B Chain B, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|C Chain C, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|D Chain D, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|E Chain E, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|F Chain F, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|G Chain G, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|H Chain H, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
Length = 584
Score = 28.1 bits (61), Expect = 2.6, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 12/67 (17%)
Query: 27 GKLYLPMFPSTLILGLEIRVKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKY----KWRII 82
G+LY P+ + + + I +KV++Y LY K F YP+P + KY WR
Sbjct: 510 GRLYPPL-ANIQEVSINIAIKVTEY------LYANKXAFRYPEPE-DKAKYVKERTWRSE 561
Query: 83 NQNLLSE 89
+LL +
Sbjct: 562 YDSLLPD 568
>pdb|1GZ4|A Chain A, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ4|B Chain B, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ4|C Chain C, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ4|D Chain D, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
Length = 551
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 12/67 (17%)
Query: 27 GKLYLPMFPSTLILGLEIRVKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKY----KWRII 82
G+LY P+ + + + I +KV++Y LY K F YP+P + KY WR
Sbjct: 488 GRLYPPL-ANIQEVSINIAIKVTEY------LYANKXAFRYPEPE-DKAKYVKERTWRSE 539
Query: 83 NQNLLSE 89
+LL +
Sbjct: 540 YDSLLPD 546
>pdb|1DO8|A Chain A, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1DO8|B Chain B, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1DO8|C Chain C, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1DO8|D Chain D, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1PJ4|A Chain A, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ4|B Chain B, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ4|C Chain C, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ4|D Chain D, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ2|A Chain A, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ2|B Chain B, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ2|C Chain C, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ2|D Chain D, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ3|A Chain A, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate.
pdb|1PJ3|B Chain B, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate.
pdb|1PJ3|C Chain C, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate.
pdb|1PJ3|D Chain D, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate
Length = 564
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 12/67 (17%)
Query: 27 GKLYLPMFPSTLILGLEIRVKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKY----KWRII 82
G+LY P+ + + + I +KV++Y LY K F YP+P + KY WR
Sbjct: 490 GRLYPPL-ANIQEVSINIAIKVTEY------LYANKXAFRYPEPE-DKAKYVKERTWRSE 541
Query: 83 NQNLLSE 89
+LL +
Sbjct: 542 YDSLLPD 548
>pdb|1YZH|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein,
Methyltransferase From Streptococcus Pneumoniae Tigr4
pdb|1YZH|B Chain B, Crystal Structure Of The Conserved Hypothetical Protein,
Methyltransferase From Streptococcus Pneumoniae Tigr4
Length = 214
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/61 (21%), Positives = 32/61 (52%)
Query: 60 LKKMFFLYPDPHFKRCKYKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTE 119
+ +++ + DP K+ K R+ + L + +L E G ++ TD + L ++ + F++
Sbjct: 112 IDRLYLNFSDPWPKKRHEKRRLTYKTFLDTFKRILPENGEIHFKTDNRGLFEYSLVSFSQ 171
Query: 120 H 120
+
Sbjct: 172 Y 172
>pdb|2ZF5|O Chain O, Crystal Structure Of Highly Thermostable Glycerol Kinase
From A Hyperthermophilic Archaeon
pdb|2ZF5|Y Chain Y, Crystal Structure Of Highly Thermostable Glycerol Kinase
From A Hyperthermophilic Archaeon
Length = 497
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 3/81 (3%)
Query: 55 EWSLYLKKMFFLYPDPHFKRCKYKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIV 114
E+ +K+ L PD +F K KW + N L E A +G +++ D ++
Sbjct: 116 EYGTMIKEKTGLVPDAYFSASKLKWLLDNVPGLREKA---EKGEVMFGTVDTFLIYRLTG 172
Query: 115 SHFTEHPLFVECDLEELKRTD 135
H T++ L +K+ D
Sbjct: 173 EHVTDYSNASRTMLFNIKKLD 193
>pdb|3K5L|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Datp Lt(0,
3) Ternary Complex
pdb|3K5M|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Ddgtp Lt(-2,
2) Ternary Complex
pdb|3K5N|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5N|B Chain B, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5O|A Chain A, Crystal Structure Of E.Coli Pol Ii
pdb|3K5O|B Chain B, Crystal Structure Of E.Coli Pol Ii
pdb|3K57|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Datp Ternary
Complex
pdb|3K58|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dttp Ternary
Complex
pdb|3K59|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dctp Ternary
Complex
pdb|3MAQ|A Chain A, Crystal Structure Of E.coli Pol Ii-normal Dna-dgtp Ternary
Complex
Length = 786
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 87 LSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDL 128
L Y L EGG+ DV+ +++ F P++VE D+
Sbjct: 92 LMNYEKRLREGGVTVYEADVRPPERYLMERFITSPVWVEGDM 133
>pdb|1Q8I|A Chain A, Crystal Structure Of Escherichia Coli Dna Polymerase Ii
Length = 783
Score = 27.3 bits (59), Expect = 4.5, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 87 LSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDL 128
L Y L EGG+ DV+ +++ F P++VE D+
Sbjct: 89 LMNYEKRLREGGVTVYEADVRPPERYLMERFITSPVWVEGDM 130
>pdb|3A1Y|G Chain G, The Structure Of Protein Complex
Length = 284
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 9 ELKDPTCEKKVEFVDVGCGKLYLPMFP 35
EL P EK VE++D G G L M P
Sbjct: 70 ELGKPELEKLVEYIDRGAGILVTNMNP 96
>pdb|3UPU|A Chain A, Crystal Structure Of The T4 Phage Sf1b Helicase Dda
pdb|3UPU|B Chain B, Crystal Structure Of The T4 Phage Sf1b Helicase Dda
pdb|3UPU|C Chain C, Crystal Structure Of The T4 Phage Sf1b Helicase Dda
Length = 459
Score = 26.2 bits (56), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 114 VSHFTEHPLFVECDLEELKRTD-PVVD 139
+S F H F +C+L E+KR++ P++D
Sbjct: 179 ISPFFTHKDFYQCELTEVKRSNAPIID 205
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
0.323 0.142 0.456
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,736,690
Number of Sequences: 62578
Number of extensions: 234508
Number of successful extensions: 544
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 518
Number of HSP's gapped (non-prelim): 31
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)