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= psy8937
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 55.8 bits (133), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 48/117 (41%), Gaps = 16/117 (13%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPG 81
C CGK +S S +L +H R CP C K F +K L RH T+T Y+
Sbjct: 24 CPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYK---- 79
Query: 82 ASKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRH 138
C CGK +S +NL+ H R CP C K F +LR H
Sbjct: 80 ------------CPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAH 124
Score = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 44/117 (37%), Gaps = 16/117 (13%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPG 81
C CGK +S +NL+ H R CP C K F +LR H T+T Y+
Sbjct: 80 CPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYK---- 135
Query: 82 ASKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRH 138
C CGK +S NL H R CP C K F + L H
Sbjct: 136 ------------CPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVH 180
Score = 31.2 bits (69), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 21/50 (42%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYT 71
C CGK +S NL H R CP C K F + L H T+T
Sbjct: 136 CPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRTHT 185
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 40/92 (43%), Gaps = 16/92 (17%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPG 81
C CGK +S SSNL++H R CP C K F L++H T+T Y+
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYK---- 62
Query: 82 ASKPLHSLDARYCKICGKHYSNSSNLKQHIRL 113
C CGK +S S +L +H R
Sbjct: 63 ------------CPECGKSFSRSDHLSRHQRT 82
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 41/96 (42%), Gaps = 17/96 (17%)
Query: 50 CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQ 109
CP C K F L++H T+T Y+ C CGK +S SS+L++
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHTGEKPYK----------------CPECGKSFSQSSDLQK 50
Query: 110 HIRLIHLPGILFCPLCQKCFKNKLYLRRHVISFHEN 145
H R CP C K F +L RH + H+N
Sbjct: 51 HQRTHTGEKPYKCPECGKSFSRSDHLSRHQRT-HQN 85
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 25/49 (51%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTY 70
C CGK +S SS+L++H R CP C K F +L RH T+
Sbjct: 35 CPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRTH 83
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 42.7 bits (99), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 45/92 (48%), Gaps = 18/92 (19%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILF-CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVP 80
CKICGK + SS L H+ LIH + C C K F K +++H T+ HT
Sbjct: 4 CKICGKSFKRSSTLSTHL-LIHSDTRPYPCQYCGKRFHQKSDMKKH--TFIHT------- 53
Query: 81 GASKPLHSLDARYCKICGKHYSNSSNLKQHIR 112
KP C++CGK +S SSNL H R
Sbjct: 54 -GEKP------HKCQVCGKAFSQSSNLITHSR 78
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S+SSNL +HIR+ C +C + F +L H+ T+T K
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 62 PF------ACDICGRKFARSDERKRHTK-IHL 86
Score = 29.6 bits (65), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 31 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
Length = 90
Score = 39.7 bits (91), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S S++L +HIR+ C +C + F +L H+ T+T K
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 62 PF------ACDICGRKFARSDERKRHTK-IHL 86
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 7 CPVESCDRRFSRSADLTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F +RH
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
Score = 29.6 bits (65), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 31 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%)
Query: 21 YCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPS 75
+C CGK Y ++S L +H R CP C KCF+++ + RH+ + + P+
Sbjct: 6 FCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVHQNKPA 60
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 93 YCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVISFHEN 145
+C CGK Y ++S L +H R CP C KCF+++ + RH + H+N
Sbjct: 6 FCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRH-LKVHQN 57
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S S+ L +HIR+ C +C + F +L H+ T+T K
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 62 PF------ACDICGRKFARSDERKRHTK-IHL 86
Score = 31.2 bits (69), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 7 CPVESCDRRFSRSAELTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F +RH
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
Score = 29.3 bits (64), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 31 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
>pdb|1UBD|C Chain C, Co-Crystal Structure Of Human Yy1 Zinc Finger Domain Bound
To The Adeno-Associated Virus P5 Initiator Element
Length = 124
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 51/121 (42%), Gaps = 17/121 (14%)
Query: 23 KICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGA 82
K C K + ++S +++H+ H P + C C K F L+RH +T
Sbjct: 11 KGCTKMFRDNSAMRKHLH-THGPRVHVCAECGKAFVESSKLKRHQLVHT----------G 59
Query: 83 SKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPL--CQKCFKNKLYLRRHVI 140
KP + CGK +S NL+ H+R+ CP C K F L+ H++
Sbjct: 60 EKPFQCT----FEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHIL 115
Query: 141 S 141
+
Sbjct: 116 T 116
Score = 33.1 bits (74), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 48/116 (41%), Gaps = 20/116 (17%)
Query: 1 TPSYRSVPGGSKPLHSLDARY--CKICGKHYSNSSNLKQHIRLIHLPGILF-CPL--CQK 55
T +R K LH+ R C CGK + SS LK+H +L+H F C C K
Sbjct: 14 TKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRH-QLVHTGEKPFQCTFEGCGK 72
Query: 56 CFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQHI 111
F LR HV +T Y + D C K ++ S+NLK HI
Sbjct: 73 RFSLDFNLRTHVRIHTGDRPY---------VCPFDG-----CNKKFAQSTNLKSHI 114
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S S L +HIR+ C +C + F +L H+ T+T K
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 62 PF------ACDICGRKFARSDERKRHTK-IHL 86
Score = 30.8 bits (68), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F +RH
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
Score = 29.6 bits (65), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 31 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S S L +HIR+ C +C + F +L H+ T+T K
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 60
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 61 PF------ACDICGRKFARSDERKRHTK-IHL 85
Score = 30.8 bits (68), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 6 CPVESCDRRFSRSDELTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 49
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F +RH
Sbjct: 50 TTHIRTHTGEKPFACDICGRKFARSDERKRHT 81
Score = 29.3 bits (64), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 30 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 81
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S S L +HIR+ C +C + F +L H+ T+T K
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 62 PF------ACDICGRKFARSDERKRHTK-IHL 86
Score = 30.8 bits (68), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F +RH
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
Score = 29.3 bits (64), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 31 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 38/92 (41%), Gaps = 16/92 (17%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPG 81
CK CG+H++ S NL H R C +C K F+ + +LR H R +
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDH----------RYIHS 69
Query: 82 ASKPLHSLDARYCKICGKHYSNSSNLKQHIRL 113
KP C+ CGK + S L H L
Sbjct: 70 KEKPF------KCQECGKGFCQSRTLAVHKTL 95
Score = 34.3 bits (77), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 94 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRH 138
CK CG+H++ S NL H R C +C K F+ + +LR H
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDH 64
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S S +L +HIR+ C +C + F +L H+ T+T K
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ S K+H + IHL
Sbjct: 62 PF------ACDICGRKFARSDERKRHTK-IHL 86
Score = 30.4 bits (67), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 7 CPVESCDRRFSQSGSLTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F +RH
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
Score = 29.3 bits (64), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S S +L HIR C +C + F +RH
Sbjct: 31 GQKPFQ------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT 82
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 41/95 (43%), Gaps = 19/95 (20%)
Query: 50 CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQ 109
CP C K F +K YL+ H +T KP C CGK Y NL +
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHT----------GEKPFE------CPKCGKCYFRKENLLE 53
Query: 110 HIR---LIHLPGILFCPLCQKCFKNKLYLRRHVIS 141
H + + C +CQ+ F+ ++ LR H++S
Sbjct: 54 HEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVS 88
Score = 33.1 bits (74), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 25/109 (22%), Positives = 43/109 (39%), Gaps = 25/109 (22%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIR---LIHLPGILFCPLCQKCFKNKLYLRRH 66
G KP C CGK Y NL +H + + C +CQ+ F+ ++ LR H
Sbjct: 32 GEKPFE------CPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLH 85
Query: 67 VGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQHIRLIH 115
+ ++T Y+ C C + + +L+ H+ +H
Sbjct: 86 MVSHTGEMPYK----------------CSSCSQQFMQKKDLQSHMIKLH 118
>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
From Human Insulinoma-Associated Protein 1 (Fragment
424-497), Northeast Structural Genomics Consortium
Target Hr7614b
Length = 85
Score = 34.7 bits (78), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%)
Query: 88 SLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVISFH 143
S + C +CG+ +++ ++H+RL+H + C C F + L RH+ H
Sbjct: 25 SAECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCH 80
Score = 34.7 bits (78), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 27/52 (51%)
Query: 16 SLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
S + C +CG+ +++ ++H+RL+H + C C F + L RH+
Sbjct: 25 SAECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHI 76
>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
Length = 90
Score = 33.9 bits (76), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S +NL HIR+ C +C + F + L H+ T+T K
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ +H + IHL
Sbjct: 62 PF------ACDICGRKFATLHTRTRHTK-IHL 86
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 35/92 (38%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F K L H+ +T KP C+IC +++S ++L
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHT----------GQKPFQ------CRICMRNFSQQASL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
HIR C +C + F RH
Sbjct: 51 NAHIRTHTGEKPFACDICGRKFATLHTRTRHT 82
Score = 26.2 bits (56), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S ++L HIR C +C + F RH
Sbjct: 31 GQKPFQ------CRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTRTRHT 82
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 33.5 bits (75), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 17/92 (18%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASK 84
C + +S +NL HIR+ C +C + F L +H+ T+T K
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHT----------GEK 61
Query: 85 PLHSLDARYCKICGKHYSNSSNLKQHIRLIHL 116
P C ICG+ ++ +H + IHL
Sbjct: 62 PF------ACDICGRKFATLHTRDRHTK-IHL 86
Score = 28.9 bits (63), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 35/92 (38%), Gaps = 18/92 (19%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F K L H+ +T KP C+IC +++S + L
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHT----------GQKPFQ------CRICMRNFSQHTGL 50
Query: 108 KQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 139
QHIR C +C + F RH
Sbjct: 51 NQHIRTHTGEKPFACDICGRKFATLHTRDRHT 82
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
G KP C+IC +++S + L QHIR C +C + F RH
Sbjct: 31 GQKPFQ------CRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFATLHTRDRHT 82
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 33.1 bits (74), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 16/95 (16%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILF-CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVP 80
C+ICGK + + +L +H +L H + CP+C FK K + HV ++ +
Sbjct: 10 CEICGKIFRDVYHLNRH-KLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGS------- 61
Query: 81 GASKPLHSLDARYCKICGKHYSNSSNLKQHIRLIH 115
KP C+ CGK +S +L HI+ +H
Sbjct: 62 -VGKPY------ICQSCGKGFSRPDHLNGHIKQVH 89
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 33.1 bits (74), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 16/92 (17%)
Query: 50 CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQ 109
C +C KCF K L+ H+ +T Y+ CK C ++SS+L +
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYK----------------CKTCDYAAADSSSLNK 54
Query: 110 HIRLIHLPGILFCPLCQKCFKNKLYLRRHVIS 141
H+R+ C +C +N L H+ S
Sbjct: 55 HLRIHSDERPFKCQICPYASRNSSQLTVHLRS 86
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 35/91 (38%), Gaps = 16/91 (17%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPG 81
C++CGK +S LK H+R C C + L +H+ ++ ++
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFK---- 66
Query: 82 ASKPLHSLDARYCKICGKHYSNSSNLKQHIR 112
C+IC NSS L H+R
Sbjct: 67 ------------CQICPYASRNSSQLTVHLR 85
>pdb|2WBT|A Chain A, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
pdb|2WBT|B Chain B, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
Length = 129
Score = 30.8 bits (68), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 39/88 (44%), Gaps = 11/88 (12%)
Query: 58 KNKLYLRRHVGTYTHTP------SYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQHI 111
+ K +R V T H P SY ASK + C +C +S+S +LKQHI
Sbjct: 38 EQKRLIRAIVKTLIHNPQLLDESSYLYRLLASKAISQF---VCPLCLMPFSSSVSLKQHI 94
Query: 112 RLIHLPGILFCPLCQKCFKNKLYLRRHV 139
R + CP+C+K F + HV
Sbjct: 95 RYTEHTKV--CPVCKKEFTSTDSALDHV 120
Score = 29.3 bits (64), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
C +C +S+S +LKQHIR + CP+C+K F + HV
Sbjct: 77 CPLCLMPFSSSVSLKQHIRYTEHTKV--CPVCKKEFTSTDSALDHV 120
>pdb|2JP9|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2JPA|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2PRT|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
Length = 119
Score = 30.0 bits (66), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 43/118 (36%), Gaps = 20/118 (16%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGA 82
C K Y S+L+ H R C C++ F L+RH +T
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHT----------G 63
Query: 83 SKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFC--PLCQKCFKNKLYLRRH 138
KP CK C + +S S +LK H R C P CQK F L RH
Sbjct: 64 VKPFQ------CKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 29.3 bits (64), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%)
Query: 23 KICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYT 71
K C + +S S LK+H R C CQ+ F +L+ H T+T
Sbjct: 42 KDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHT 90
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFC--PLCQKCFKNKLYLRRH 66
CK C + +S S +LK H R C P CQK F L RH
Sbjct: 69 CKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
>pdb|3MCW|A Chain A, Crystal Structure Of An A Putative Hydrolase Of The
Isochorismatase Family (Cv_1320) From Chromobacterium
Violaceum Atcc 12472 At 1.06 A Resolution
pdb|3MCW|B Chain B, Crystal Structure Of An A Putative Hydrolase Of The
Isochorismatase Family (Cv_1320) From Chromobacterium
Violaceum Atcc 12472 At 1.06 A Resolution
Length = 198
Score = 29.6 bits (65), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 13/81 (16%)
Query: 21 YCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCF---KNKLYLRRHVGTYTHTPSYR 77
+ ++ S S++++ +R G C CF K + RR H S
Sbjct: 113 WLELVVAGVSTSNSVEATVRXAGNLGFAVCLAEDGCFTFDKTDWHGRRRSADEVHAXS-- 170
Query: 78 SVPGASKPLHSLDARYCKICG 98
L +LD YC++CG
Sbjct: 171 --------LANLDGEYCRVCG 183
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.3 bits (64), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 25/64 (39%), Gaps = 16/64 (25%)
Query: 50 CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQ 109
C CQ F+ K L H +T YR C ICG ++ +NLK
Sbjct: 20 CDRCQASFRYKGNLASHKTVHTGEKPYR----------------CNICGAQFNRPANLKT 63
Query: 110 HIRL 113
H R+
Sbjct: 64 HTRI 67
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 6/39 (15%)
Query: 3 SYRSVPGGSKPLHSLDARYCKICGKHYSNSSNLKQHIRL 41
S+++V G KP C ICG ++ +NLK H R+
Sbjct: 35 SHKTVHTGEKPYR------CNICGAQFNRPANLKTHTRI 67
>pdb|2ELW|A Chain A, Solution Structure Of The 5th C2h2 Zinc Finger Of Mouse
Zinc Finger Protein 406
Length = 37
Score = 29.3 bits (64), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 20 RYCKICGKHYSNSSNLKQHIRLIHLP 45
++C+ C K YS+ NL +HIR +H P
Sbjct: 10 QHCRFCKKKYSDVKNLIKHIRDMHDP 35
Score = 29.3 bits (64), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 92 RYCKICGKHYSNSSNLKQHIRLIHLP 117
++C+ C K YS+ NL +HIR +H P
Sbjct: 10 QHCRFCKKKYSDVKNLIKHIRDMHDP 35
>pdb|2M0F|A Chain A, Solution Structure Of Miz-1 Zinc Finger 7
Length = 29
Score = 29.3 bits (64), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 22 CKICGKHYSNSSNLKQHIRL 41
C+ CGK ++ S NLK+H+R+
Sbjct: 5 CRECGKQFTTSGNLKRHLRI 24
Score = 29.3 bits (64), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 94 CKICGKHYSNSSNLKQHIRL 113
C+ CGK ++ S NLK+H+R+
Sbjct: 5 CRECGKQFTTSGNLKRHLRI 24
>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
Length = 88
Score = 29.3 bits (64), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 16/71 (22%)
Query: 50 CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNLKQ 109
C +C + F +L H+ T+T KP C ICG+ ++ S K+
Sbjct: 6 CRICMRNFSRSDHLTTHIRTHT----------GEKPF------ACDICGRKFARSDERKR 49
Query: 110 HIRLIHLPGIL 120
H + H+ IL
Sbjct: 50 HRDIQHILPIL 60
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRH 66
C+IC +++S S +L HIR C +C + F +RH
Sbjct: 6 CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 94 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRH 138
C+IC +++S S +L HIR C +C + F +RH
Sbjct: 6 CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50
>pdb|1WEO|A Chain A, Solution Structure Of Ring-Finger In The Catalytic
Subunit (Irx3) Of Cellulose Synthase
Length = 93
Score = 28.9 bits (63), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 21/64 (32%)
Query: 10 GSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFC-------PLCQKCFKNKLY 62
G KPL +LD ++C+ICG + + G LF P C+ C++ Y
Sbjct: 7 GPKPLKNLDGQFCEICGDQIG-----------LTVEGDLFVACNECGFPACRPCYE---Y 52
Query: 63 LRRH 66
RR
Sbjct: 53 ERRE 56
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 21/62 (33%)
Query: 84 KPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFC-------PLCQKCFKNKLYLR 136
KPL +LD ++C+ICG + + G LF P C+ C++ Y R
Sbjct: 9 KPLKNLDGQFCEICGDQIG-----------LTVEGDLFVACNECGFPACRPCYE---YER 54
Query: 137 RH 138
R
Sbjct: 55 RE 56
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
Length = 73
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYT 71
C + +S S L +HIR+ C +C + F +L H+ T+T
Sbjct: 27 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT 73
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 18/65 (27%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKHYSNSSNL 107
CP+ C + F L RH+ +T KP C+IC +++S S +L
Sbjct: 22 CPVESCDRRFSRSDELTRHIRIHT----------GQKPFQ------CRICMRNFSRSDHL 65
Query: 108 KQHIR 112
HIR
Sbjct: 66 TTHIR 70
>pdb|2ELU|A Chain A, Solution Structure Of The 5th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 37
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 20 RYCKICGKHYSNSSNLKQHIRLIHLP 45
++C+ C K YS+ NL +HIR H P
Sbjct: 10 QHCRFCKKKYSDVKNLIKHIRDAHDP 35
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 92 RYCKICGKHYSNSSNLKQHIRLIHLP 117
++C+ C K YS+ NL +HIR H P
Sbjct: 10 QHCRFCKKKYSDVKNLIKHIRDAHDP 35
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 33/133 (24%), Positives = 48/133 (36%), Gaps = 27/133 (20%)
Query: 19 ARYCKICGKHYSNSSNLKQHIRLIHLPG---------ILFCPLCQKCFKNKLYLRRHVGT 69
+R K C + +S L H+ + H+ G CP K FK K L H+
Sbjct: 25 SRPKKSCDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRV 84
Query: 70 YTHTPSYR-SVPGASKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPL--CQ 126
+T + PG CGK ++ S NLK H R C C
Sbjct: 85 HTGEKPFPCPFPG---------------CGKIFARSENLKIHKRTHTGEKPFKCEFEGCD 129
Query: 127 KCFKNKLYLRRHV 139
+ F N ++H+
Sbjct: 130 RRFANSSDRKKHM 142
>pdb|2P0D|A Chain A, Arhgap9 Ph Domain In Complex With Ins(1,4,5)p3
pdb|2P0F|A Chain A, Arhgap9 Ph Domain In Complex With Ins(1,3,5)p3
pdb|2P0H|A Chain A, Arhgap9 Ph Domain In Complex With Ins(1,3,4)p3
Length = 129
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 1 TPSYRSVPGGSKPLHSLDARYCKIC-GKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKN 59
PS P GS+P S+D R + G+H S+ N+ HIR I PG F L Q +
Sbjct: 56 APSSGWGPAGSRPESSVDLRGAALAHGRHLSSRRNV-LHIRTI--PGHEF--LLQSDHET 110
Query: 60 KL 61
+L
Sbjct: 111 EL 112
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 35/155 (22%), Positives = 60/155 (38%), Gaps = 28/155 (18%)
Query: 16 SLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQ--------KCFKNK----LYL 63
D R+ C + + + L HI H+ G +C + FK + +++
Sbjct: 1 ETDCRW-DGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHM 59
Query: 64 RRHVGTYTHTPSYRSVPGASKPLHSLDAR----------YCK--ICGKHYSNSSNLKQHI 111
RRH G H ++ + L +L C+ C K +SN+S+ +H
Sbjct: 60 RRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQ 119
Query: 112 RLIH---LPGILFCPLCQKCFKNKLYLRRHVISFH 143
H P + P C K + + LR+HV + H
Sbjct: 120 NRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
>pdb|7ZNF|A Chain A, Alternating Zinc Fingers In The Human Male Associated
Protein Zfy: 2d Nmr Structure Of An Even Finger And
Implications For "jumping-Linker" Dna Recognition
Length = 30
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 22 CKICGKHYSNSSNLKQHIRLIH 43
C+ C K +++SSNLK HI+ H
Sbjct: 5 CQYCEKRFADSSNLKTHIKTKH 26
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 94 CKICGKHYSNSSNLKQHIRLIH 115
C+ C K +++SSNLK HI+ H
Sbjct: 5 CQYCEKRFADSSNLKTHIKTKH 26
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 23/54 (42%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPS 75
C CGK +S SS L QH R+ C C K F L H +T PS
Sbjct: 17 CVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTSGPS 70
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 25 CGKHYSNSSNLKQHIRLIHLPGILFC---PLCQKCFKNKLYLRRHVGTYTHTPSY 76
CG+ +SN L H + H+ F P C K F K +L+ H+ ++ T Y
Sbjct: 15 CGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSDTRDY 69
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 94 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVISFH 143
C++C + ++ +LK+H R C LC + F + L RH H
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
Score = 25.8 bits (55), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
C++C + ++ +LK+H R C LC + F + L RH
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHA 50
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 22 CKICGKHYSNSSNLKQHIRL 41
C +CGK +S SS+L+ H R+
Sbjct: 15 CDVCGKEFSQSSHLQTHQRV 34
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 94 CKICGKHYSNSSNLKQHIRL 113
C +CGK +S SS+L+ H R+
Sbjct: 15 CDVCGKEFSQSSHLQTHQRV 34
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
Length = 66
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 94 CKICGKHYSNSSNLKQHIRLIHLPGILF--CPLCQKCFKNKLYLRRHVISFHE 144
CK+C + Y++ SN +H H + CP C K F K + HV H+
Sbjct: 13 CKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVKIIHK 65
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILF--CPLCQKCFKNKLYLRRHV 67
CK+C + Y++ SN +H H + CP C K F K + HV
Sbjct: 13 CKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHV 60
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 81 GASKPLHSLDARY-CKICGKHYSNSSNLKQHIRLIHLPGI--LFCPLCQKCFKNKLYLRR 137
G+S HS + Y C IC ++ S +K HI H + CP C K L
Sbjct: 4 GSSGRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGV 63
Query: 138 HV 139
H+
Sbjct: 64 HL 65
Score = 26.2 bits (56), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 9 GGSKPLHSLDARY-CKICGKHYSNSSNLKQHIRLIHLPGI--LFCPLCQKCFKNKLYLRR 65
G S HS + Y C IC ++ S +K HI H + CP C K L
Sbjct: 4 GSSGRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGV 63
Query: 66 HV 67
H+
Sbjct: 64 HL 65
>pdb|1FFK|Z Chain Z, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|2 Chain 2, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|2 Chain 2, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|4 Chain 4, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|4 Chain 4, Co-Crystal Structure Of Tylosin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1KD1|4 Chain 4, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|4 Chain 4, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|4 Chain 4, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|4 Chain 4, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|4 Chain 4, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|4 Chain 4, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|4 Chain 4, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|4 Chain 4, Crystal Structure Of Ccdap-puromycin Bound At The
Peptidyl Transferase Center Of The 50s Ribosomal
Subunit
pdb|1Q81|4 Chain 4, Crystal Structure Of Minihelix With 3' Puromycin Bound
To A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|4 Chain 4, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|4 Chain 4, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|2 Chain 2, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|2 Chain 2, Structure Of Cca Oligonucleotide Bound To The Trna
Binding Sites Of The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1S72|3 Chain 3, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1W2B|2 Chain 2, Trigger Factor Ribosome Binding Domain In Complex With
50s
pdb|1YHQ|3 Chain 3, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|3 Chain 3, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|3 Chain 3, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|3 Chain 3, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|3 Chain 3, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|3 Chain 3, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|3 Chain 3, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|3 Chain 3, The Structure Of The Transition State Analogue "daa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ5|3 Chain 3, The Structure Of The Transition State Analogue "raa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ6|3 Chain 3, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|3 Chain 3, The Structure Of The Transition State Analogue "dca"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ8|3 Chain 3, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|3 Chain 3, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|3 Chain 3, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|3 Chain 3, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|3 Chain 3, The Structure Of The Transition State Analogue "dan"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQN|3 Chain 3, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To
The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|3 Chain 3, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|3 Chain 3, The Structure Of The Transition State Analogue "rap"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|2OTJ|3 Chain 3, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|3 Chain 3, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|3 Chain 3, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|3 Chain 3, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|3 Chain 3, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|3 Chain 3, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|3 Chain 3, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|2 Chain 2, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|3 Chain 3, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|3 Chain 3, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|3 Chain 3, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3CXC|2 Chain 2, The Structure Of An Enhanced Oxazolidinone Inhibitor
Bound To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3G4S|3 Chain 3, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|3 Chain 3, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|3 Chain 3, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3I55|3 Chain 3, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|3 Chain 3, Co-Crystal Structure Of Triacetyloleandomcyin Bound To
The Large Ribosomal Subunit
pdb|4ADX|3 Chain 3, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
pdb|3OW2|2 Chain 2, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 92
Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 4 YRSVPGGSKPLHSLDARY-CKICGK 27
+ VPGG KP D +Y C CGK
Sbjct: 52 FSKVPGGDKPTKKTDLKYRCGECGK 76
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Domain
In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Protein
In Complex With Methylated Cpg Site Dna
Length = 133
Score = 26.2 bits (56), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 36/94 (38%), Gaps = 16/94 (17%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPG 81
C +C + Y ++L++H + C C+K F Y +H +T Y+
Sbjct: 25 CIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQ---- 80
Query: 82 ASKPLHSLDARYCKICGKHYSNSSNLKQHIRLIH 115
C CGK + N + HI+ +H
Sbjct: 81 ------------CLACGKSFINYQFMSSHIKSVH 102
>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double
Cys2His2 Zinc Finger From The Human Enhancer Binding
Protein Mbp-1
Length = 57
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVGTYTHT 73
C+ CG S LK+HIR C C FK K L +H+ + H+
Sbjct: 4 CEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKSKAHS 55
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
0.326 0.140 0.467
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,754,850
Number of Sequences: 62578
Number of extensions: 185312
Number of successful extensions: 821
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 602
Number of HSP's gapped (non-prelim): 162
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)