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= 038042
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 79.7 bits (195), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 51/118 (43%), Positives = 72/118 (61%), Gaps = 4/118 (3%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F+ +DE L+A+ + LK +TE+S LV EG V +M FI+RG++ S T + F +
Sbjct: 13 LFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGF-Y 71
Query: 91 NAS--NDGHFCGEELLPRASVLQLGG-LPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
N S +G FCG+ELL A + G LP STRTV A T VEAF + AD+ K + + F
Sbjct: 72 NRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELKFVASQF 129
>pdb|3SHR|A Chain A, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
pdb|3SHR|B Chain B, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
Length = 299
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 56/142 (39%), Gaps = 26/142 (18%)
Query: 12 NIITHANTLTPLHSLVLHQVFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFI 71
+I H + L S+ F + E L+ + D+L+ Y ++ +G+ + F I
Sbjct: 148 GLIKHTEYMEFLKSV---PTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFII 204
Query: 72 VRGKI--------WSEPTTIRTTTFSFNASNDGHFCGEELLPRASVLQLGGLPISTRTVI 123
+GK+ +P +RT G + GE+ L G + T VI
Sbjct: 205 SKGKVNVTREDSPNEDPVFLRTL-------GKGDWFGEKALQ--------GEDVRTANVI 249
Query: 124 AHTPVEAFVIEADDWKQLVNSF 145
A V VI+ D +K L+
Sbjct: 250 AAEAVTCLVIDRDSFKHLIGGL 271
>pdb|1WP6|A Chain A, Crystal Structure Of Maltohexaose-producing Amylase From
Alkalophilic Bacillus Sp.707.
pdb|1WPC|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase
Complexed With Pseudo-Maltononaose
pdb|2D3L|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase From
Bacillus Sp.707 Complexed With Maltopentaose.
pdb|2D3N|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase From
Bacillus Sp.707 Complexed With Maltohexaose
Length = 485
Score = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 13/72 (18%)
Query: 41 NAMLDLLKLVPYTERSILVH----------EGSGVEKMFFIVR---GKIWSEPTTIRTTT 87
N LD ++ +T H +G+G K F+ R G++WS+ T RT T
Sbjct: 402 NDYLDHHNIIGWTREGNTAHPNSGLATIMSDGAGGSKWMFVGRNKAGQVWSDITGNRTGT 461
Query: 88 FSFNASNDGHFC 99
+ NA G+F
Sbjct: 462 VTINADGWGNFS 473
>pdb|1HW5|A Chain A, The CapCRP VARIANT T127LS128A
pdb|1HW5|B Chain B, The CapCRP VARIANT T127LS128A
Length = 210
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 24 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 73
>pdb|3ETQ|A Chain A, X-Ray Structure Of Cysteine-Free Fragment Of Mhcn2 C-
Terminal Region From Amino Acids 443-630 Including
C508n, C584s, And C601s Mutations
pdb|3ETQ|B Chain B, X-Ray Structure Of Cysteine-Free Fragment Of Mhcn2 C-
Terminal Region From Amino Acids 443-630 Including
C508n, C584s, And C601s Mutations
Length = 204
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ AML LK + ++ EG+ +KM+FI G + ++ T
Sbjct: 81 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV-----SVLTKGNKE 135
Query: 91 NASNDGHFCGE-ELLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
+DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 136 MKLSDGSYFGEISLLTRGR---------RTASVRADTYSRLYSLSVDNFNEVLEEY 182
>pdb|1CGP|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1CGP|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
Length = 205
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 23 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 72
>pdb|3FWE|A Chain A, Crystal Structure Of The Apo D138l Cap Mutant
pdb|3FWE|B Chain B, Crystal Structure Of The Apo D138l Cap Mutant
Length = 210
Score = 31.2 bits (69), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 24 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 73
>pdb|1O3S|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
Length = 200
Score = 31.2 bits (69), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 23/51 (45%)
Query: 51 PYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 15 KYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 65
>pdb|1O3Q|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3R|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3T|A Chain A, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
pdb|1O3T|B Chain B, Protein-Dna Recognition And Dna Deformation Revealed In
Crystal Structures Of Cap-Dna Complexes
Length = 200
Score = 31.2 bits (69), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 23/51 (45%)
Query: 51 PYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 15 KYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 65
>pdb|2CGP|A Chain A, Catabolite Gene Activator ProteinDNA COMPLEX,
ADENOSINE-3', 5'-Cyclic-Monophosphate
pdb|1G6N|A Chain A, 2.1 Angstrom Structure Of Cap-Camp
pdb|1G6N|B Chain B, 2.1 Angstrom Structure Of Cap-Camp
pdb|3HIF|A Chain A, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|B Chain B, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|C Chain C, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|D Chain D, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|E Chain E, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3HIF|F Chain F, The Crystal Structure Of Apo Wild Type Cap At 3.6 A
Resolution.
pdb|3RYP|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYP|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYR|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RYR|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
Length = 210
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 24 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 73
>pdb|1RUN|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1RUN|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1J59|A Chain A, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1J59|B Chain B, Catabolite Gene Activator Protein (Cap)DNA COMPLEX +
Adenosine-3',5'-Cyclic-Monophosphate
pdb|1LB2|A Chain A, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna
Polymerase In Complex With Cap And Dna
pdb|1I5Z|A Chain A, Structure Of Crp-Camp At 1.9 A
pdb|1I5Z|B Chain B, Structure Of Crp-Camp At 1.9 A
pdb|1ZRC|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-Icap38 Dna
pdb|1ZRC|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-Icap38 Dna
pdb|1ZRD|A Chain A, 4 Crystal Structures Of Cap-dna With All Base-pair
Substitutions At Position 6, Cap-[6a;17t]icap38 Dna
pdb|1ZRD|B Chain B, 4 Crystal Structures Of Cap-dna With All Base-pair
Substitutions At Position 6, Cap-[6a;17t]icap38 Dna
pdb|1ZRE|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6g;17c]icap38 Dna
pdb|1ZRE|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6g;17c]icap38 Dna
pdb|1ZRF|A Chain A, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6c;17g]icap38 Dna
pdb|1ZRF|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair
Substitutions At Position 6, Cap-[6c;17g]icap38 Dna
pdb|2GZW|A Chain A, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|B Chain B, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|C Chain C, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2GZW|D Chain D, Crystal Structure Of The E.coli Crp-camp Complex
pdb|2WC2|A Chain A, Nmr Structure Of Catabolite Activator Protein In The
Unliganded State
pdb|2WC2|B Chain B, Nmr Structure Of Catabolite Activator Protein In The
Unliganded State
pdb|3IYD|G Chain G, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3IYD|H Chain H, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3N4M|A Chain A, E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain In
Complex With Cap And Dna
Length = 209
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 23 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 72
>pdb|3KCC|A Chain A, Crystal Structure Of D138l Mutant Of Catabolite Gene
Activator Protein
pdb|3KCC|B Chain B, Crystal Structure Of D138l Mutant Of Catabolite Gene
Activator Protein
Length = 260
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 74 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 123
>pdb|1RUO|A Chain A, Catabolite Gene Activator Protein (Cap) MutantDNA COMPLEX
+ Adenosine-3',5'-Cyclic-Monophosphate
pdb|1RUO|B Chain B, Catabolite Gene Activator Protein (Cap) MutantDNA COMPLEX
+ Adenosine-3',5'-Cyclic-Monophosphate
Length = 209
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 23 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 72
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 31.2 bits (69), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ AML LK + ++ EG+ +KM+FI G + ++ T
Sbjct: 82 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV-----SVLTKGNKE 136
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
+DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 137 MKLSDGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 183
>pdb|1Q3E|A Chain A, Hcn2j 443-645 In The Presence Of Cgmp
pdb|1Q3E|B Chain B, Hcn2j 443-645 In The Presence Of Cgmp
Length = 207
Score = 30.8 bits (68), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ AML LK + ++ EG+ +KM+FI G + ++ T
Sbjct: 79 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV-----SVLTKGNKE 133
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
+DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 134 MKLSDGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 180
>pdb|1I6X|A Chain A, Structure Of A Star Mutant Crp-Camp At 2.2 A
pdb|1I6X|B Chain B, Structure Of A Star Mutant Crp-Camp At 2.2 A
Length = 209
Score = 30.8 bits (68), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + + N G F GE
Sbjct: 23 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKHEEGKEMILSYLNQGDFIGE 72
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 30.4 bits (67), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ AML LK + ++ EG+ +KM+FI G + ++ T
Sbjct: 79 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV-----SVLTKGNKE 133
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
+DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 134 MKLSDGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 180
>pdb|3BPZ|A Chain A, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|B Chain B, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|C Chain C, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|D Chain D, Hcn2-I 443-460 E502k In The Presence Of Camp
Length = 202
Score = 30.4 bits (67), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ AML LK + ++ EG+ +KM+FI G + ++ T
Sbjct: 79 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV-----SVLTKGNKE 133
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
+DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 134 MKLSDGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 180
>pdb|2Q0A|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
pdb|2Q0A|B Chain B, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 200
Score = 30.4 bits (67), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ AML LK + ++ EG+ +KM+FI G + ++ T
Sbjct: 77 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV-----SVLTKGNKE 131
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
+DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 132 MKLSDGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 178
>pdb|3U0Z|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U0Z|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 30.4 bits (67), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 50/118 (42%), Gaps = 19/118 (16%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFI---VRGKIWSEPTTIRTTT 87
+F D +F+ AML L+ + ++ EG+ +KM+FI V G I ++ T
Sbjct: 82 LFANADPNFVTAMLSKLRFEVFQPGDYIIREGAVGKKMYFIQHGVAGVITKSSKEMKLT- 140
Query: 88 FSFNASNDGHFCGEELLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
DG + GE L L G S R A T + + D++ +++ +
Sbjct: 141 -------DGSYFGEICL-----LTKGRRTASVR---ADTYCRLYSLSVDNFNEVLEEY 183
>pdb|3MQ4|A Chain A, Metabotropic Glutamate Receptor Mglur7 Complexed With
Ly3414 Antagonist
Length = 481
Score = 29.6 bits (65), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 7/67 (10%)
Query: 4 LFKLPCGLNIITHANTLTPLHSLVLHQVFDRI---DEHFLNAMLDLLKLVPYTERSILVH 60
LF++P I++A+T L + F R+ D AM+D++K + + S L
Sbjct: 139 LFQIPQ----ISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLAS 194
Query: 61 EGSGVEK 67
EGS EK
Sbjct: 195 EGSYGEK 201
>pdb|2E4Z|A Chain A, Crystal Structure Of The Ligand-Binding Region Of The
Group Iii Metabotropic Glutamate Receptor
Length = 501
Score = 29.3 bits (64), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 7/67 (10%)
Query: 4 LFKLPCGLNIITHANTLTPLHSLVLHQVFDRI---DEHFLNAMLDLLKLVPYTERSILVH 60
LF++P I++A+T L + F R+ D AM+D++K + + S L
Sbjct: 139 LFQIP----QISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLAS 194
Query: 61 EGSGVEK 67
EGS EK
Sbjct: 195 EGSYGEK 201
>pdb|3QOP|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3QOP|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RDI|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RDI|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3ROU|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3ROU|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RPQ|A Chain A, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
pdb|3RPQ|B Chain B, Domain-Domain Flexibility Leads To Allostery Within The
Camp Receptor Protein (Crp)
Length = 210
Score = 29.3 bits (64), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 22/50 (44%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFNASNDGHFCGE 101
Y +S L+H+G E +++IV+G + N G F GE
Sbjct: 24 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILFYLNQGDFIGE 73
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ +ML L+ + ++ EG+ +KM+FI G + + T +
Sbjct: 76 LFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKETKLA- 134
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 135 ----DGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 177
>pdb|3U11|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U11|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ +ML L+ + ++ EG+ +KM+FI G + + T +
Sbjct: 82 LFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKETKLA- 140
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
DG + GE LL R T +V A T + + D++ +++ +
Sbjct: 141 ----DGSYFGEICLLTRGR---------RTASVRADTYCRLYSLSVDNFNEVLEEY 183
>pdb|1I0A|A Chain A, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
pdb|1I0A|B Chain B, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
pdb|1I0A|C Chain C, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
pdb|1I0A|D Chain D, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
Length = 466
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 6/93 (6%)
Query: 19 TLTPLHSLVLHQVFDRIDEHFLNAMLDLLKLV-----PYTERSILVHEGSGVEKMFFIVR 73
T+ PL S VL ID L + LD+ + +ER +V E V + I
Sbjct: 195 TVLPLGSGVLAGNPLEIDRELLRSELDMTSITLNSIDAISERDFVV-ELISVATLLMIHL 253
Query: 74 GKIWSEPTTIRTTTFSFNASNDGHFCGEELLPR 106
K+ + TT F F +D + G LLP+
Sbjct: 254 SKLAEDLIIFSTTEFGFVTLSDAYSTGSSLLPQ 286
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 49/116 (42%), Gaps = 15/116 (12%)
Query: 31 VFDRIDEHFLNAMLDLLKLVPYTERSILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSF 90
+F D +F+ +ML L+ + ++ EG+ +KM+FI G + + T +
Sbjct: 76 LFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKETKLA- 134
Query: 91 NASNDGHFCGEE-LLPRASVLQLGGLPISTRTVIAHTPVEAFVIEADDWKQLVNSF 145
DG + GE LL R T V A T + + D++ +++ +
Sbjct: 135 ----DGSYFGEICLLTRGR---------RTARVRADTYCRLYSLSVDNFNEVLEEY 177
>pdb|4GJT|A Chain A, Complex Structure Of Nectin-4 Bound To Mv-H
Length = 473
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 35 IDEHFLNAMLDLLKL----VPYTERSILV-HEGSGVEKMFFIVRGKIWSEPTTIRT 85
+ F N M+ L +L + + E SI + ++GSG F +V+ +W PT +R+
Sbjct: 136 VSNDFSNCMVALGELKFAALCHREDSITIPYQGSGKGVSFQLVKLGVWKSPTDMRS 191
>pdb|2OZ6|A Chain A, Crystal Structure Of Virulence Factor Regulator From
Pseudomonas Aeruginosa In Complex With Camp
Length = 207
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 52 YTERSILVHEGSGVEKMFFIVRGK--IWSEPTTIRTTTFSFNASNDGHFCGE 101
YT +S +++ G E +FFI++G I E R + N G F GE
Sbjct: 18 YTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGY--LNSGDFFGE 67
>pdb|2DIE|A Chain A, Alkaline Alpha-Amylase Amyk From Bacillus Sp. Ksm-1378
Length = 485
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 51 PYTERSILVHEGSGVEKMFFIVR---GKIWSEPTTIRTTTFSFNASNDGHFC 99
P + + ++ +G G K ++ + G++W + T R+ T + NA G+F
Sbjct: 422 PNSGLATIMSDGPGGNKWMYVGKHKAGQVWRDITGNRSGTVTINADGWGNFT 473
>pdb|1R9O|A Chain A, Crystal Structure Of P4502c9 With Flurbiprofen Bound
Length = 477
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 8 PCGLNIITHANTLTPLHSLVLHQVFDRIDEHFLNAMLDL 46
PC I + S++ H+ FD D+ FLN M L
Sbjct: 146 PCDPTFILGCAPCNVICSIIFHKRFDYKDQQFLNLMEKL 184
>pdb|1OG2|A Chain A, Structure Of Human Cytochrome P450 Cyp2c9
pdb|1OG2|B Chain B, Structure Of Human Cytochrome P450 Cyp2c9
pdb|1OG5|A Chain A, Structure Of Human Cytochrome P450 Cyp2c9
pdb|1OG5|B Chain B, Structure Of Human Cytochrome P450 Cyp2c9
Length = 475
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 8 PCGLNIITHANTLTPLHSLVLHQVFDRIDEHFLNAMLDL 46
PC I + S++ H+ FD D+ FLN M L
Sbjct: 144 PCDPTFILGCAPCNVICSIIFHKRFDYKDQQFLNLMEKL 182
>pdb|3MAX|A Chain A, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
pdb|3MAX|B Chain B, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
pdb|3MAX|C Chain C, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
Length = 367
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 14/53 (26%)
Query: 43 MLDLLKLVPYTER----SILVHEGSGVEKMFFIVRGKIWSEPTTIRTTTFSFN 91
+L +L+L+ Y +R I +H G GVE+ F+ TT R T SF+
Sbjct: 151 VLAILELLKYHQRVLYIDIDIHHGDGVEEAFY----------TTDRVMTVSFH 193
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 0.141 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,743,679
Number of Sequences: 62578
Number of extensions: 178762
Number of successful extensions: 533
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 501
Number of HSP's gapped (non-prelim): 38
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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: 47 (22.7 bits)