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= 035494
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 166 bits (420), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 73/168 (43%), Positives = 114/168 (67%)
Query: 12 IVAKDGSGNFTTISEALAAVPQKYEGRFVIFVATGIYEESVTVSKRMVNLTIIGEGSQKS 71
+VA+DG+G++ T++EA+AA P K + R+VI+V G Y+E+V V+ +NL I+G+G +
Sbjct: 6 VVAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYAT 65
Query: 72 IIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGFRNIAGPENGEAVAARVQSDRATFHNC 131
I G +V DG + +AT A+G+G + + +N AGP +AVA RV +D + + C
Sbjct: 66 TITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQNTAGPAKDQAVALRVGADMSVINRC 125
Query: 132 RFEGYKNAVWAQTHRQFYRSCLITGTVDFIFGDAATIFQNCQIMVRKP 179
R + Y++ ++A + RQFYR +TGTVDFIFG+AA +FQ CQ++ RKP
Sbjct: 126 RIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKP 173
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 162 bits (410), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 72/176 (40%), Positives = 117/176 (66%)
Query: 4 NNKIEPHLIVAKDGSGNFTTISEALAAVPQKYEGRFVIFVATGIYEESVTVSKRMVNLTI 63
++ + P+++VA DGSG++ T+SEA+AA P+ + R+VI + G+Y E+V V K+ N+
Sbjct: 2 SSTVGPNVVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMF 61
Query: 64 IGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGFRNIAGPENGEAVAARVQS 123
+G+G +II K+V DG +++AT A+G G A+ + F+N AG +AVA RV S
Sbjct: 62 LGDGRTSTIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALRVGS 121
Query: 124 DRATFHNCRFEGYKNAVWAQTHRQFYRSCLITGTVDFIFGDAATIFQNCQIMVRKP 179
D + F+ C Y+++++ ++RQF+ +C I GTVDFIFG+AA + Q+C I R+P
Sbjct: 122 DLSAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRP 177
>pdb|1QJV|A Chain A, Pectin Methylesterase Pema From Erwinia Chrysanthemi
pdb|1QJV|B Chain B, Pectin Methylesterase Pema From Erwinia Chrysanthemi
Length = 342
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 57/192 (29%), Positives = 89/192 (46%), Gaps = 27/192 (14%)
Query: 10 HLIVAKDGSG--NFTTISEALAAVPQKYEGRFVIFVATGIYEESVTVSKRMVNLTIIGEG 67
+ +V+K S F TI++A+A+ P FVI + G+Y E +T+++ NL + GE
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAG-STPFVILIKNGVYNERLTITRN--NLHLKGES 61
Query: 68 SQKSIIVGR------KSVADGVNIYDAATFVAIGEGLFAKSMGFRN-IAGPEN------- 113
++I KS ++T + A+S+ RN P N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSD 121
Query: 114 ------GEAVAARV--QSDRATFHNCRFEGYKNAVWAQTHRQFYRSCLITGTVDFIFGDA 165
+AVA V DRA F + GY++ ++ R F+ C I+GTVDFIFGD
Sbjct: 122 SSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDG 181
Query: 166 ATIFQNCQIMVR 177
+F NC ++ R
Sbjct: 182 TALFNNCDLVSR 193
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 53/181 (29%), Positives = 92/181 (50%), Gaps = 28/181 (15%)
Query: 21 FTTISEALAAVPQKYEGRFVIFVATGIYEESVTVSKRMVNLTIIGEGSQKSIIVGRKSVA 80
F++I+ AL + P K + F+IF+ G+Y E + V++ V T+ GE ++ ++G + A
Sbjct: 44 FSSINAALKSAP-KDDTPFIIFLKNGVYTERLEVARSHV--TLKGE-NRDGTVIGANTAA 99
Query: 81 DGVN-------IYDAATFVAIGEGLFAKSMGFRN-IAGPENG-------------EAVAA 119
+N ++T + A+++ RN P N +AVA
Sbjct: 100 GMLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTDPTKLKDTQAVAL 159
Query: 120 RV--QSDRATFHNCRFEGYKNAVWAQT-HRQFYRSCLITGTVDFIFGDAATIFQNCQIMV 176
+ SD+A F + EGY++ ++++T R ++ C I+G VDFIFG T+F NC I+
Sbjct: 160 LLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGSGITVFDNCNIVA 219
Query: 177 R 177
R
Sbjct: 220 R 220
>pdb|2NTB|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTB|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTP|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTP|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTQ|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
pdb|2NTQ|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
Length = 342
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 57/192 (29%), Positives = 89/192 (46%), Gaps = 27/192 (14%)
Query: 10 HLIVAKDGSG--NFTTISEALAAVPQKYEGRFVIFVATGIYEESVTVSKRMVNLTIIGEG 67
+ +V+K S F TI++A+A+ P FVI + G+Y E +T+++ NL + GE
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAG-STPFVILIKNGVYNERLTITRN--NLHLKGES 61
Query: 68 SQKSIIVGR------KSVADGVNIYDAATFVAIGEGLFAKSMGFRN-IAGPEN------- 113
++I KS ++T + A+S+ RN P N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSD 121
Query: 114 ------GEAVAARV--QSDRATFHNCRFEGYKNAVWAQTHRQFYRSCLITGTVDFIFGDA 165
+AVA V DRA F + GY++ ++ R F+ C I+GTVDFIFGD
Sbjct: 122 SSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDG 181
Query: 166 ATIFQNCQIMVR 177
+F NC ++ R
Sbjct: 182 TALFNNCDLVSR 193
>pdb|2NSP|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NSP|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NST|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NST|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NT6|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT6|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT9|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
pdb|2NT9|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
Length = 342
Score = 70.9 bits (172), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 27/196 (13%)
Query: 10 HLIVAKDGSG--NFTTISEALAAVPQKYEGRFVIFVATGIYEESVTVSKRMVNLTIIGEG 67
+ +V+K S F TI++A+A+ P FVI + G+Y E +T+++ NL + GE
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAG-STPFVILIKNGVYNERLTITRN--NLHLKGES 61
Query: 68 SQKSIIVGR------KSVADGVNIYDAATFVAIGEGLFAKSMGFRN-IAGPEN------- 113
++I KS ++T + A+S+ RN P N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSD 121
Query: 114 ------GEAVAARV--QSDRATFHNCRFEGYKNAVWAQTHRQFYRSCLITGTVDFIFGDA 165
+AVA V DRA F + GY+ ++ R F+ C I+GTVDFIFGD
Sbjct: 122 SSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDG 181
Query: 166 ATIFQNCQIMVRKPLD 181
+F NC ++ R D
Sbjct: 182 TALFNNCDLVSRYRAD 197
>pdb|1Q1Y|A Chain A, Crystal Structures Of Peptide Deformylase From
Staphylococcus Aureus Complexed With Actinonin
pdb|3U7K|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
pdb|3U7L|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
pdb|3U7M|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
pdb|3U7N|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
Length = 191
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 38 RFVIFVATGIYEESVTVSKRMVNLTIIGEGSQKS---IIVGRKSVADGVNIYDAATFVAI 94
R+ + G+ + +SKRM+ + I +GS KS ++V K V+ V ++
Sbjct: 52 RYGLRSGVGLAAPQINISKRMIAVLIPDDGSGKSYDYMLVNPKIVSHSVQ----EAYLPT 107
Query: 95 GEGLFAKSMGFRNIAG 110
GEG + N+AG
Sbjct: 108 GEGXLSVD---DNVAG 120
>pdb|1LM4|A Chain A, Structure Of Peptide Deformylase From Staphylococcus
Aureus At 1.45 A
pdb|1LM4|B Chain B, Structure Of Peptide Deformylase From Staphylococcus
Aureus At 1.45 A
Length = 194
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 38 RFVIFVATGIYEESVTVSKRMVNLTIIGEGSQKS---IIVGRKSVADGVNIYDAATFVAI 94
R+ + G+ + +SKRM+ + I +GS KS ++V K V+ V ++
Sbjct: 63 RYGLRSGVGLAAPQINISKRMIAVLIPDDGSGKSYDYMLVNPKIVSHSVQ----EAYLPT 118
Query: 95 GEGLFAKSMGFRNIAG 110
GEG + N+AG
Sbjct: 119 GEGXLSVD---DNVAG 131
>pdb|1LQW|A Chain A, Crystal Structure Of S.Aureus Peptide Deformylase
pdb|1LQW|B Chain B, Crystal Structure Of S.Aureus Peptide Deformylase
pdb|2AI9|A Chain A, S.Aureus Polypeptide Deformylase
pdb|2AI9|B Chain B, S.Aureus Polypeptide Deformylase
Length = 183
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 38 RFVIFVATGIYEESVTVSKRMVNLTIIGEGSQKS---IIVGRKSVADGVNIYDAATFVAI 94
R+ + G+ + +SKRM+ + I +GS KS ++V K V+ V ++
Sbjct: 52 RYGLRSGVGLAAPQINISKRMIAVLIPDDGSGKSYDYMLVNPKIVSHSVQ----EAYLPT 107
Query: 95 GEGLFAKSMGFRNIAG 110
GEG + N+AG
Sbjct: 108 GEGCLSVD---DNVAG 120
>pdb|1FJX|A Chain A, Structure Of Ternary Complex Of Hhai Methyltransferase
Mutant (T250g) In Complex With Dna And Adohcy
pdb|2C7R|A Chain A, Hhai Dna Methyltransferase (T250g Mutant) Complex With
Oligonucleotide Containing 2-Aminopurine As A Target
Base (Gpgc:gmgc) And Sah
Length = 327
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + +A G++ Y G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGIAIGLSAY--------GGGIFAKTGGY 265
>pdb|1PNU|N Chain N, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|N Chain N, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 125
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 14/76 (18%)
Query: 59 VNLTIIGEGSQKSIIVGRKSVADGVN--------IYDAATFVAIGEGLFAKSMGFRNIAG 110
V + I G GS+KS V + S +GV + + T V G+ AK R + G
Sbjct: 52 VVIAINGSGSRKSFTVRKISFGEGVERVFPFASPLVNQVTIVERGKVRRAKLYYLRELRG 111
Query: 111 PENGEAVAARVQSDRA 126
AAR++SDR+
Sbjct: 112 K------AARIKSDRS 121
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
Length = 327
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|1MHT|A Chain A, Covalent Ternary Structure Of Hhai Methyltransferase, Dna
And S-Adenosyl-L-Homocysteine
pdb|3MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Unmodified Dna And Adohcy
pdb|4MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Native
Dna And Adohcy
pdb|5MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With
Hemimethylated Dna And Adohcy
pdb|6MHT|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Dna Containing 4'-Thio-2'deoxycytidine At The Target
pdb|7MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|8MHT|A Chain A, Cytosine-Specific Methyltransferase HhaiDNA COMPLEX
pdb|9MHT|A Chain A, Cytosine-specific Methyltransferase Hhai/dna Complex
pdb|10MH|A Chain A, Ternary Structure Of Hhai Methyltransferase With Adohcy
And Hemimethylated Dna Containing
5,6-Dihydro-5-Azacytosine At The Target
pdb|2HMY|B Chain B, Binary Complex Of Hhai Methyltransferase With Adomet
Formed In The Presence Of A Short Nonpsecific Dna
Oligonucleotide
pdb|1M0E|A Chain A, Zebularine: A Novel Dna Methylation Inhibitor That Forms A
Covalent Complex With Dna Methyltransferase
pdb|1SKM|A Chain A, Hhai Methyltransferase In Complex With Dna Containing An
Abasic South Carbocyclic Sugar At Its Target Site
pdb|2C7O|A Chain A, Hhai Dna Methyltransferase Complex With 13mer
Oligonucleotide Containing 2-Aminopurine Adjacent To The
Target Base (Pcgc:gmgc) And Sah
pdb|2C7P|A Chain A, Hhai Dna Methyltransferase Complex With Oligonucleotide
Containing 2-Aminopurine Opposite To The Target Base (
Gcgc:gmpc) And Sah
pdb|2C7Q|A Chain A, Hhai Dna Methyltransferase Complex With Oligonucleotide
Containing 2-Aminopurine Outside The Recognition
Sequence (Paired With G) And Sah
pdb|2HR1|A Chain A, Ternary Structure Of Wt M.hhai C5-cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
pdb|1HMY|A Chain A, Crystal Structure Of The Hhai Dna Methyltransferase
Complexed With S- Adenosyl-L-Methionine
pdb|3EEO|A Chain A, M. Hhai Co-Crystallized With Synthetic Dsdna Containing A
Propane Diol In Place Of The Deoxycytidine Residue
Targeted For Methylation
Length = 327
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna
Cytosine Methylation
Length = 327
Score = 26.6 bits (57), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 49 EESVTVSKRMVNLTIIGEGSQKSIIVGRKSVADGVNIYDAATFVAIGEGLFAKSMGF 105
+E + + V L I+G+G Q I + + A T A G G+FAK+ G+
Sbjct: 217 QEIEQTTPKTVRLGIVGKGGQGERIYSTRGI--------AITLSAYGGGIFAKTGGY 265
>pdb|1GV4|A Chain A, Murine Apoptosis-Inducing Factor (Aif)
pdb|1GV4|B Chain B, Murine Apoptosis-Inducing Factor (Aif)
Length = 528
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 38 RFVIFVATGIYEESVTVSKRMVNLTIIGEG---SQKSIIVGRKSVADGVNI 85
R +F G + +S+ + ++T+IG G S+ + +GRKS A G+ +
Sbjct: 197 RTTLFRKIGDFRALEKISREVKSITVIGGGFLGSELACALGRKSQASGIEV 247
>pdb|3GD4|A Chain A, Crystal Structure Of The Reduced, Nad-Bound Form Of Murine
Apoptosis Inducing Factor
pdb|3GD4|B Chain B, Crystal Structure Of The Reduced, Nad-Bound Form Of Murine
Apoptosis Inducing Factor
Length = 511
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 38 RFVIFVATGIYEESVTVSKRMVNLTIIGEG---SQKSIIVGRKSVADGVNI 85
R +F G + +S+ + ++T+IG G S+ + +GRKS A G+ +
Sbjct: 178 RTTLFRKIGDFRALEKISREVKSITVIGGGFLGSELACALGRKSQASGIEV 228
>pdb|3GD3|A Chain A, Crystal Structure Of A Naturally Folded Murine Apoptosis
Inducing Factor
pdb|3GD3|B Chain B, Crystal Structure Of A Naturally Folded Murine Apoptosis
Inducing Factor
pdb|3GD3|C Chain C, Crystal Structure Of A Naturally Folded Murine Apoptosis
Inducing Factor
pdb|3GD3|D Chain D, Crystal Structure Of A Naturally Folded Murine Apoptosis
Inducing Factor
Length = 535
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 38 RFVIFVATGIYEESVTVSKRMVNLTIIGEG---SQKSIIVGRKSVADGVNI 85
R +F G + +S+ + ++T+IG G S+ + +GRKS A G+ +
Sbjct: 202 RTTLFRKIGDFRALEKISREVKSITVIGGGFLGSELACALGRKSQASGIEV 252
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
0.321 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,100,206
Number of Sequences: 62578
Number of extensions: 193200
Number of successful extensions: 522
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 510
Number of HSP's gapped (non-prelim): 31
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
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: 48 (23.1 bits)