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= 029479
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B6I|A Chain A, Wrba From Escherichia Coli, Native Structure
pdb|3B6I|B Chain B, Wrba From Escherichia Coli, Native Structure
pdb|3B6J|A Chain A, Wrba From Escherichia Coli, Nadh Complex
pdb|3B6J|B Chain B, Wrba From Escherichia Coli, Nadh Complex
pdb|3B6K|A Chain A, Wrba From Escherichia Coli, Benzoquinone Complex
pdb|3B6K|B Chain B, Wrba From Escherichia Coli, Benzoquinone Complex
pdb|3B6M|A Chain A, Wrba From Escherichia Coli, Second Crystal Form
pdb|3B6M|B Chain B, Wrba From Escherichia Coli, Second Crystal Form
pdb|2R96|A Chain A, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2R96|C Chain C, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2R97|A Chain A, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2R97|C Chain C, Crystal Structure Of E. Coli Wrba In Complex With Fmn
pdb|2RG1|A Chain A, Crystal Structure Of E. Coli Wrba Apoprotein
pdb|2RG1|B Chain B, Crystal Structure Of E. Coli Wrba Apoprotein
Length = 198
Score = 157 bits (398), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 88/191 (46%), Positives = 115/191 (60%), Gaps = 4/191 (2%)
Query: 1 MYGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTITPNELAEA 60
MYGH+E +A + +GA+ V+G E + +VPET+ + K G G P TP ELA+
Sbjct: 11 MYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAG-GKTQTAPVATPQELADY 69
Query: 61 DGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAI 120
D I+ G PTRFG M+ Q + FLD TGGLW S L GK A +F T
Sbjct: 70 DAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQEQTITST-W 128
Query: 121 TQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFA-GDGSRQPSELELAQAFHQGK 179
T L HHGM+ VPIGY + ++ +V+GG+PYGA T A GDGSRQPS+ EL+ A +QG+
Sbjct: 129 TTLAHHGMVIVPIGYA-AQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEELSIARYQGE 187
Query: 180 YFAGITKKLKG 190
Y AG+ KL G
Sbjct: 188 YVAGLAVKLNG 198
>pdb|2ZKI|A Chain A, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|B Chain B, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|C Chain C, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|D Chain D, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|E Chain E, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|F Chain F, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|G Chain G, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
pdb|2ZKI|H Chain H, Crystal Structure Of Hypothetical Trp Repressor Binding
Protein From Sul Folobus Tokodaii (St0872)
Length = 199
Score = 105 bits (261), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 71/190 (37%), Positives = 95/190 (50%), Gaps = 10/190 (5%)
Query: 2 YGHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTITPNELAEAD 61
YG + +LA+EI KGA G E K+ +V ETL + ++ D+P +T +++ AD
Sbjct: 14 YGSIVELAKEIGKGAEEA-GAEVKIRRVRETLPPEFQSRIPFDKVKDIPEVTLDDMRWAD 72
Query: 62 GILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAIT 121
G +G PTR+G MA K FLD T LW+ L GKP F LT T
Sbjct: 73 GFAIGSPTRYGNMAGGLKTFLDTTAILWKDNVLYGKPVTFFTEASTVHGGHETTILTMST 132
Query: 122 QLVHHGMIFVPIGYTFGAGMSEM-EKVKGGSPYGAGTFAGDGSRQP-SELELAQAFHQGK 179
H GMI VPIGY G+ E+ + GG PYGA GS++ E+E A QGK
Sbjct: 133 YAYHFGMIIVPIGY----GIPELFQTTTGGGPYGATHL---GSKEELDEMERKIARFQGK 185
Query: 180 YFAGITKKLK 189
+ K +K
Sbjct: 186 RITEVAKAIK 195
>pdb|1ZWK|A Chain A, Structure Of Wrba From Pseudomonas Aeruginosa
pdb|1ZWK|B Chain B, Structure Of Wrba From Pseudomonas Aeruginosa
pdb|1ZWL|A Chain A, Structure Of Wrba From Pseudomonas Aeruginosa In Complex
With Fmn
Length = 207
Score = 93.6 bits (231), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 70/198 (35%), Positives = 94/198 (47%), Gaps = 22/198 (11%)
Query: 2 YGHVEKLAEEIQKGAASVE--GVEAKLWQVP------ETLSEDVLGKMGAGPKSDVPTIT 53
+G ++A +I +G VE G EA++ VP E ++ D+ P T
Sbjct: 23 HGATAEMARQIARG---VEQGGFEARVRTVPAVSTECEAVAPDI-------PAEGALYAT 72
Query: 54 PNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXX 113
+L G+ LG PTRFG MA+ K FLD T LW + L GKPA +F
Sbjct: 73 LEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQE 132
Query: 114 XXPLTAITQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFAG-DGSRQPSELELA 172
L+ + L+HHGM+ + I Y+ A +E GG+PYGA FAG DG R E EL
Sbjct: 133 TTQLSMLLPLLHHGMLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSLDEHELT 189
Query: 173 QAFHQGKYFAGITKKLKG 190
GK A KL+G
Sbjct: 190 LCRALGKRLAETAGKLEG 207
>pdb|1YDG|A Chain A, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|B Chain B, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|C Chain C, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|D Chain D, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|E Chain E, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|F Chain F, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|G Chain G, Crystal Structure Of Trp Repressor Binding Protein Wrba
pdb|1YDG|H Chain H, Crystal Structure Of Trp Repressor Binding Protein Wrba
Length = 211
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 56/170 (32%), Positives = 74/170 (43%), Gaps = 14/170 (8%)
Query: 25 KLWQVPETLSEDVLG-----KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFK 79
+L +V ET +DV+ K DVP TP +L A+ I+ PTRFG +Q +
Sbjct: 39 RLLKVRETAPQDVIDGQDAWKANIEAMKDVPEATPADLEWAEAIVFSSPTRFGGATSQMR 98
Query: 80 AFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHGMIFVPIGYTFGA 139
AF+D GGLW S +LA K T +H G + P GYT
Sbjct: 99 AFIDTLGGLWSSGKLANKTFSAMTSAQNVNGGQETTLQTLYMTAMHWGAVLTPPGYT--- 155
Query: 140 GMSEMEKVKGGSPYGAGTFAGDGSRQP-SELELAQAFHQGKYFAGITKKL 188
E+ GG+PYGA A QP E + A HQ + +T KL
Sbjct: 156 --DEVIFKSGGNPYGASVTANG---QPLLENDRASIRHQVRRQVELTAKL 200
>pdb|1YRH|A Chain A, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|B Chain B, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|C Chain C, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|D Chain D, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|E Chain E, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|F Chain F, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|G Chain G, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
pdb|1YRH|H Chain H, Crystal Structure Of Trp Repressor Binding Protein Wrba In
Complex With Fmn
Length = 211
Score = 70.9 bits (172), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/170 (32%), Positives = 73/170 (42%), Gaps = 14/170 (8%)
Query: 25 KLWQVPETLSEDVLG-----KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFK 79
+L +V ET +DV+ K DVP TP +L A+ I+ PTRFG +Q +
Sbjct: 39 RLLKVRETAPQDVIDGQDAWKANIEAXKDVPEATPADLEWAEAIVFSSPTRFGGATSQXR 98
Query: 80 AFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHGMIFVPIGYTFGA 139
AF+D GGLW S +LA K T H G + P GYT
Sbjct: 99 AFIDTLGGLWSSGKLANKTFSAXTSAQNVNGGQETTLQTLYXTAXHWGAVLTPPGYT--- 155
Query: 140 GMSEMEKVKGGSPYGAGTFAGDGSRQP-SELELAQAFHQGKYFAGITKKL 188
E+ GG+PYGA A QP E + A HQ + +T KL
Sbjct: 156 --DEVIFKSGGNPYGASVTANG---QPLLENDRASIRHQVRRQVELTAKL 200
>pdb|2A5L|A Chain A, The Crystal Structure Of The Trp Repressor Binding Protein
Wrba From Pseudomonas Aeruginosa
pdb|2A5L|B Chain B, The Crystal Structure Of The Trp Repressor Binding Protein
Wrba From Pseudomonas Aeruginosa
Length = 200
Score = 66.6 bits (161), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 67/196 (34%), Positives = 89/196 (45%), Gaps = 22/196 (11%)
Query: 2 YGHVEKLAEEIQKGAASVE--GVEAKLWQVP------ETLSEDVLGKMGAGPKSDVPTIT 53
+G + A +I +G VE G EA++ VP E ++ D+ P T
Sbjct: 16 HGATAEXARQIARG---VEQGGFEARVRTVPAVSTECEAVAPDI-------PAEGALYAT 65
Query: 54 PNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLWRSQQLAGKPAGIFYXXXXXXXXXX 113
+L G+ LG PTRFG A+ K FLD T LW + L GKPA +F
Sbjct: 66 LEDLKNCAGLALGSPTRFGNXASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQE 125
Query: 114 XXPLTAITQLVHHGMIFVPIGYTFGAGMSEMEKVKGGSPYGAGTFAG-DGSRQPSELELA 172
L+ + L+HHG + + I Y+ A +E GG+PYGA FAG DG R E EL
Sbjct: 126 TTQLSXLLPLLHHGXLVLGIPYSEPA---LLETRGGGTPYGASHFAGADGKRSLDEHELT 182
Query: 173 QAFHQGKYFAGITKKL 188
GK A KL
Sbjct: 183 LCRALGKRLAETAGKL 198
>pdb|2ARK|A Chain A, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|B Chain B, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|C Chain C, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|D Chain D, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|E Chain E, Structure Of A Flavodoxin From Aquifex Aeolicus
pdb|2ARK|F Chain F, Structure Of A Flavodoxin From Aquifex Aeolicus
Length = 188
Score = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 40/135 (29%), Positives = 58/135 (42%), Gaps = 25/135 (18%)
Query: 3 GHVEKLAEEIQKGAASVEGVEAKLWQVPETLSEDVLGKMGAGPKSDVPTITPNELAEADG 62
G+ +K AE + +GA S+EG E +L V E EDVL ADG
Sbjct: 16 GNTKKXAELVAEGARSLEGTEVRLKHVDEATKEDVLW--------------------ADG 55
Query: 63 ILLGFPTRFGMMAAQFKAFL-DATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAIT 121
+ +G PT G+++ + K F D G LW ++ GK A F + +T
Sbjct: 56 LAVGSPTNXGLVSWKXKRFFDDVLGDLW--GEIDGKIACAFSSSGGWGGGNEVACXSILT 113
Query: 122 QLVHHGMIFVPIGYT 136
L + G F+ G T
Sbjct: 114 XLXNFG--FLVFGVT 126
>pdb|1SQS|A Chain A, X-Ray Crystal Structure Protein Sp1951 Of Streptococcus
Pneumoniae. Northeast Structural Genomics Consortium
Target Spr27.
pdb|1SQS|B Chain B, X-Ray Crystal Structure Protein Sp1951 Of Streptococcus
Pneumoniae. Northeast Structural Genomics Consortium
Target Spr27.
pdb|2OYS|A Chain A, Crystal Structure Of Sp1951 Protein From Streptococcus
Pneumoniae In Complex With Fmn, Northeast Structural
Genomics Target Spr27
pdb|2OYS|B Chain B, Crystal Structure Of Sp1951 Protein From Streptococcus
Pneumoniae In Complex With Fmn, Northeast Structural
Genomics Target Spr27
Length = 242
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 28 QVPETLSEDVLGK-MGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATG 86
++ + SE++ K + +D + EL E+D I++ P ++ K F++ G
Sbjct: 47 EISNSDSEELFKKGIDRQSNADDGGVIKKELLESDIIIISSPVYLQNVSVDTKNFIERIG 106
Query: 87 GLWRSQQLAGK 97
G +LAGK
Sbjct: 107 GWSHLFRLAGK 117
>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 = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances
Sequence Discrimination Of Dna Methyltransferase M.Hhai
Length = 327
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>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 = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 27.7 bits (60), Expect = 4.5, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%)
Query: 82 LDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHG 127
LD LW SQ GK +G++ +TA T+LV HG
Sbjct: 2507 LDTVKDLWGSQFFTGKISGVWSVYCTFLLSWFHALITARTRLVPHG 2552
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 27.7 bits (60), Expect = 4.5, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%)
Query: 82 LDATGGLWRSQQLAGKPAGIFYXXXXXXXXXXXXPLTAITQLVHHG 127
LD LW SQ GK +G++ +TA T+LV HG
Sbjct: 2298 LDTVKDLWGSQFFTGKISGVWSVYCTFLLSWFHALITARTRLVPHG 2343
>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna
Methyltransferase With Unmodified Dna And Adohcy
Length = 327
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer
Gcgc-Gmgc Oligonucleotide And Sah
Length = 327
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna
Methyltransferase, With Unmodified Dna And Adohcy
Length = 327
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|1SVU|A Chain A, Structure Of The Q237w Mutant Of Hhai Dna
Methyltransferase: An Insight Into Protein-Protein
Interactions
pdb|1SVU|B Chain B, Structure Of The Q237w Mutant Of Hhai Dna
Methyltransferase: An Insight Into Protein-Protein
Interactions
Length = 327
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPCQAFSISGKQKGFEDSRGTLF 101
>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer:
Observable Precatalytic Intermediates During Dna
Cytosine Methylation
Length = 327
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 40 KMGAGPKSDVPTITPNELAEADGILLGFPTRFGMMAAQFKAFLDATGGLW 89
G P+ D+ + + + D + GFP + ++ + K F D+ G L+
Sbjct: 52 NFGEKPEGDITQVNEKTIPDHDILCAGFPAQAFSISGKQKGFEDSRGTLF 101
>pdb|3P9D|D Chain D, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9D|L Chain L, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|DD Chain d, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|LL Chain l, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|4D8Q|D Chain D, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8Q|L Chain L, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|DD Chain d, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|LL Chain l, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
Length = 528
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 8/38 (21%)
Query: 7 KLAEEIQKGAASVEGVEAKLWQ--------VPETLSED 36
+++ + K A S+EGV+A +WQ +P TL+E+
Sbjct: 420 EISRRLSKEARSMEGVQAFIWQEFASALEVIPTTLAEN 457
>pdb|2NVO|A Chain A, Crystal Structure Of Deinococcus Radiodurans Ro (Rsr)
Protein
Length = 535
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 10/49 (20%)
Query: 33 LSEDVLGKMGAGPKSDVPTITPNELA----------EADGILLGFPTRF 71
L+ DV G M G + VP +TPN A E D + +GF +F
Sbjct: 367 LALDVSGSMTCGDVAGVPGLTPNMAAAAMSLIALRTEPDALTMGFAEQF 415
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
0.316 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,910,598
Number of Sequences: 62578
Number of extensions: 239639
Number of successful extensions: 462
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 425
Number of HSP's gapped (non-prelim): 39
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)