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= psy7353
(139 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 52/98 (53%), Gaps = 11/98 (11%)
Query: 12 ASVTEGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMK 71
+S + G+ C C K+ F++ Y RH L H G K + CPVCG F R D+M
Sbjct: 2 SSGSSGV-ACEICGKI-----FRDVYHLNRHK-LSHSG--EKPYSCPVCGLRFKRKDRMS 52
Query: 72 NHMKT--GCQRKVFPCPVCGKEFSRPDKMKNHMKTVHD 107
H+++ G K + C CGK FSRPD + H+K VH
Sbjct: 53 YHVRSHDGSVGKPYICQSCGKGFSRPDHLNGHIKQVHS 90
>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 = 58.9 bits (141), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 34/89 (38%), Positives = 45/89 (50%), Gaps = 8/89 (8%)
Query: 16 EGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMK 75
E YKC EC K +F + Q+H H G K + CP CGK FS+ ++ H +
Sbjct: 2 EKPYKCPECGK-----SFSQSSNLQKHQRT-HTG--EKPYKCPECGKSFSQSSDLQKHQR 53
Query: 76 TGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
T K + CP CGK FSR D + H +T
Sbjct: 54 THTGEKPYKCPECGKSFSRSDHLSRHQRT 82
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 31/71 (43%), Gaps = 8/71 (11%)
Query: 6 LNLFRYASVTEGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFS 65
L + E YKC EC K +F Q+H H G K + CP CGK FS
Sbjct: 20 LQKHQRTHTGEKPYKCPECGK-----SFSQSSDLQKHQRT-HTG--EKPYKCPECGKSFS 71
Query: 66 RPDKMKNHMKT 76
R D + H +T
Sbjct: 72 RSDHLSRHQRT 82
>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 = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 47/99 (47%), Gaps = 8/99 (8%)
Query: 6 LNLFRYASVTEGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFS 65
L + E YKC EC K +F + + + H H G K + CP CGK FS
Sbjct: 65 LTRHQRTHTGEKPYKCPECGK-----SFSQRANLRAHQRT-HTG--EKPYACPECGKSFS 116
Query: 66 RPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ ++ H +T K + CP CGK FSR D + H +T
Sbjct: 117 QLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRT 155
Score = 55.8 bits (133), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 44/99 (44%), Gaps = 8/99 (8%)
Query: 6 LNLFRYASVTEGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFS 65
L + E Y C EC K +F + H H G K + CP CGK FS
Sbjct: 93 LRAHQRTHTGEKPYACPECGK-----SFSQLAHLRAHQRT-HTG--EKPYKCPECGKSFS 144
Query: 66 RPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
R D + H +T K + CP CGK FSR D + H +T
Sbjct: 145 REDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRT 183
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 45/89 (50%), Gaps = 8/89 (8%)
Query: 16 EGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMK 75
E YKC EC K +F +K RH H G K + CP CGK FS+ ++ H +
Sbjct: 47 EKPYKCPECGK-----SFSDKKDLTRHQRT-HTG--EKPYKCPECGKSFSQRANLRAHQR 98
Query: 76 TGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
T K + CP CGK FS+ ++ H +T
Sbjct: 99 THTGEKPYACPECGKSFSQLAHLRAHQRT 127
Score = 49.3 bits (116), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 28/52 (53%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
K + CP CGK FSR D + H +T K + CP CGK FS + H +T
Sbjct: 20 KPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRT 71
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 16 EGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMK 75
E Y C EC K +F H H G K + CP CGK FS + H +
Sbjct: 19 EKPYACPECGK-----SFSRSDHLAEHQRT-HTG--EKPYKCPECGKSFSDKKDLTRHQR 70
Query: 76 TGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
T K + CP CGK FS+ ++ H +T
Sbjct: 71 THTGEKPYKCPECGKSFSQRANLRAHQRT 99
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 6 LNLFRYASVTEGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFS 65
L + E YKC EC K N ++ QR H G K + CP CGK FS
Sbjct: 121 LRAHQRTHTGEKPYKCPECGKS--FSREDNLHTHQR----THTG--EKPYKCPECGKSFS 172
Query: 66 RPDKMKNHMKTGCQRKV 82
R D + H +T +K
Sbjct: 173 RRDALNVHQRTHTGKKT 189
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 40/73 (54%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F S RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 14 RRFSQSGSLTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 71 KFARSDERKRHTK 83
Score = 39.3 bits (90), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FS+ + H++ +K F C +C + FSR D + H++T
Sbjct: 5 YACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 29.6 bits (65), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRK 81
K F C +CG++F+R D+ K H K ++K
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHLRQK 89
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F + + RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 14 RRFSDSSNLTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 71 KFARSDERKRHTK 83
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FS + H++ +K F C +C + FSR D + H++T
Sbjct: 5 YACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 29.6 bits (65), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRK 81
K F C +CG++F+R D+ K H K ++K
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHLRQK 89
>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 = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 14 RRFSRSADLTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 71 KFARSDERKRHTK 83
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FSR + H++ +K F C +C + FSR D + H++T
Sbjct: 5 YACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 29.6 bits (65), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRK 81
K F C +CG++F+R D+ K H K ++K
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHLRQK 89
>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 = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 14 RRFSRSAELTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 71 KFARSDERKRHTK 83
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FSR ++ H++ +K F C +C + FSR D + H++T
Sbjct: 5 YACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 29.6 bits (65), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRK 81
K F C +CG++F+R D+ K H K ++K
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHLRQK 89
>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 = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 13 RRFSRSDELTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 69
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 70 KFARSDERKRHTK 82
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FSR D++ H++ +K F C +C + FSR D + H++T
Sbjct: 4 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 55
>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 = 49.7 bits (117), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 14 RRFSRSDELTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 71 KFARSDERKRHTK 83
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FSR D++ H++ +K F C +C + FSR D + H++T
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 29.6 bits (65), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRK 81
K F C +CG++F+R D+ K H K ++K
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHLRQK 89
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 49.7 bits (117), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F RH + H G +K F C +C + FSR D + H++T K F C +CG+
Sbjct: 14 RRFSRSDELTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+R D+ K H K
Sbjct: 71 KFARSDERKRHTK 83
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FSR D++ H++ +K F C +C + FSR D + H++T
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
>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 = 49.7 bits (117), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 31/54 (57%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVH 106
K F C +C + FSR D + H++T K F C +CG++F+R D+ K H H
Sbjct: 2 KPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDIQH 55
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 46.2 bits (108), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVHD 107
F C VC + F+R + +K H ++ K +PC +C + F+R D + H + +H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHS 55
Score = 26.2 bits (56), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMK 75
+ F + +RH Y K +PC +C + F+R D + H +
Sbjct: 10 RAFARQEHLKRH---YRSHTNEKPYPCGLCNRAFTRRDLLIRHAQ 51
>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 = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQR--KVFPCPVCGKEFSRPDKMKNHMKTVH 106
+ C VC + ++ H T +R KV+PCP C KEF+R D M H+K +H
Sbjct: 11 YRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVKIIH 64
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 6/60 (10%)
Query: 16 EGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMK 75
E Y+C C++V + + +F RH H+ KV+PCP C KEF+R D M H+K
Sbjct: 8 EHTYRCKVCSRV-----YTHISNFCRHYVTSHKR-NVKVYPCPFCFKEFTRKDNMTAHVK 61
>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 = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FSR D++ H++ +K F C +C + FSR D + H++T
Sbjct: 20 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 71
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKT 76
+ F RH + H G +K F C +C + FSR D + H++T
Sbjct: 29 RRFSRSDELTRHIRI-HTG--QKPFQCRICMRNFSRSDHLTTHIRT 71
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 23 ECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKV 82
+C D + F +RH H G K F C C ++FSR D +K H +T K
Sbjct: 38 QCDFKDCERRFSRSDQLKRHQ-RRHTGV--KPFQCKTCQRKFSRSDHLKTHTRTHTGEKP 94
Query: 83 FPC--PVCGKEFSRPDKMKNH 101
F C P C K+F+R D++ H
Sbjct: 95 FSCRWPSCQKKFARSDELVRH 115
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
C + FSR D++K H + K F C C ++FSR D +K H +T
Sbjct: 44 CERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRT 88
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNH 101
F C +CGK F R + H+ + +PC CGK F + MK H
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKH 48
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
K+FK + H ++ + + +PC CGK F + MK H K C VCGK
Sbjct: 9 KSFKRSSTLSTHLLIHSD---TRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGK 65
Query: 91 EFSRPDKMKNHMK 103
FS+ + H +
Sbjct: 66 AFSQSSNLITHSR 78
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 29 VIKTF-KNKYSFQRHAFLYHEGCQRKV--FPCPVCGKEFSRPDKMKNHMKTGCQRKVFPC 85
++KT N ++LY + + F CP+C FS +K H++ KV C
Sbjct: 46 IVKTLIHNPQLLDESSYLYRLLASKAISQFVCPLCLMPFSSSVSLKQHIRYTEHTKV--C 103
Query: 86 PVCGKEFSRPDKMKNHM 102
PVC KEF+ D +H+
Sbjct: 104 PVCKKEFTSTDSALDHV 120
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 39.3 bits (90), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 36/76 (47%), Gaps = 7/76 (9%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPV- 87
K+FK KY H H G K FPCP CGK F+R + +K H +T K F C
Sbjct: 70 KSFKAKYKLVNH-IRVHTG--EKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFE 126
Query: 88 -CGKEFSRPDKMKNHM 102
C + F+ K HM
Sbjct: 127 GCDRRFANSSDRKKHM 142
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRK------VFPCPVCGKEFSRPDKMKNHMKTGCQRKVFP 84
+TF + H + H G + CP GK F K+ NH++ K FP
Sbjct: 33 RTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKPFP 92
Query: 85 CPV--CGKEFSRPDKMKNHMKT 104
CP CGK F+R + +K H +T
Sbjct: 93 CPFPGCGKIFARSENLKIHKRT 114
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 51 QRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVHDCFM 110
+R+ + C CGK FS + H +T K + C CGK F + + H + VH
Sbjct: 15 ERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHR-VHTGSG 73
Query: 111 PAT 113
P++
Sbjct: 74 PSS 76
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMK 103
CG +F+R D++ H + + F C C + FSR D + HMK
Sbjct: 44 CGWKFARSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMK 87
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCPV--CGKEFSRPDKMKNHMK 103
CGK +++ +K H++T K + C CG +F+R D++ H +
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYR 59
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMK 103
CG +F+R D++ H + + F C C + FSR D + HMK
Sbjct: 43 CGWKFARSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMK 86
Score = 33.5 bits (75), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCPV--CGKEFSRPDKMKNHMK 103
CGK +++ +K H++T K + C CG +F+R D++ H +
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYR 58
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%)
Query: 52 RKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMK 103
K + C CGK FSR + H + K + C CGK FS+ + NH +
Sbjct: 12 EKPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQR 63
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 52 RKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNH 101
+K F C CG+ F++ + H +T + + C +C K F R D +++H
Sbjct: 15 KKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDH 64
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMK 103
C F+R D++ H + K F C VC + FSR D + HMK
Sbjct: 53 CDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHMK 96
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMK 75
K F C VC + FSR D + HMK
Sbjct: 74 KPFQCGVCNRSFSRSDHLALHMK 96
>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 = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F K + H + H G +K F C +C + FS+ + H++T K F C +CG+
Sbjct: 14 RRFSQKTNLDTHIRI-HTG--QKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+ H K
Sbjct: 71 KFATLHTRTRHTK 83
Score = 34.7 bits (78), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FS+ + H++ +K F C +C + FS+ + H++T
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRT 56
>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 = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
+ F K + H + H G +K F C +C + FS+ + H++T K F C +CG+
Sbjct: 14 RRFSQKTNLDTHIRI-HTG--QKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGR 70
Query: 91 EFSRPDKMKNHMK 103
+F+ H K
Sbjct: 71 KFATLHTRDRHTK 83
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 55 FPCPV--CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ CPV C + FS+ + H++ +K F C +C + FS+ + H++T
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRT 56
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 3/86 (3%)
Query: 31 KTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGK 90
K+F +K RH + H G + + C VCGK+F + HMK K + C +C K
Sbjct: 17 KSFTHKSQRDRHMSM-HLGL--RPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAK 73
Query: 91 EFSRPDKMKNHMKTVHDCFMPATTPQ 116
F D H+ + + A Q
Sbjct: 74 RFMWRDSFHRHVTSCTKSYEAAKAEQ 99
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVHDCFMP 111
K++PC CGK F+ + HM + + C VCGK+F + HMK +H P
Sbjct: 9 KLYPCQ-CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMK-IHTGIKP 65
>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 = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%)
Query: 57 CPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVHD 107
C VCGK FSR DK+K HM+ K + C C + + H++ D
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSD 61
>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 = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 41/99 (41%), Gaps = 10/99 (10%)
Query: 11 YASVTEG--IYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPD 68
Y + +G Y C+ C + V T S +RH F H K +PC C K F +
Sbjct: 13 YELIVDGRVYYICIVCKRSYVCLT-----SLRRH-FNIHSW--EKKYPCRYCEKVFPLAE 64
Query: 69 KMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVHD 107
H + + C CGK F M +H+K+VH
Sbjct: 65 YRTKHEIHHTGERRYQCLACGKSFINYQFMSSHIKSVHS 103
>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 = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 57 CPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVH 106
CPVCG+ F+ + H++ +VFPC C F + H+ H
Sbjct: 31 CPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCH 80
>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 = 35.0 bits (79), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 39 FQRHAFLYHEG--C---QRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFS 93
F++ L HE C +VF C VC + F R +++ HM + + C C ++F
Sbjct: 46 FRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFM 105
Query: 94 RPDKMKNHMKTVHD 107
+ +++HM +H
Sbjct: 106 QKKDLQSHMIKLHS 119
Score = 30.8 bits (68), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%)
Query: 57 CPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNH 101
CP C K+F +K H + K F CP CGK + R + + H
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEH 54
>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 = 34.7 bits (78), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 18 IYKCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPV--CGKEFSRPDKMKNHMK 75
++ C EC K F +RH L H G K F C CGK FS ++ H++
Sbjct: 34 VHVCAECGKA-----FVESSKLKRHQ-LVHTG--EKPFQCTFEGCGKRFSLDFNLRTHVR 85
Query: 76 TGCQRKVFPCPV--CGKEFSRPDKMKNHMKT 104
+ + CP C K+F++ +K+H+ T
Sbjct: 86 IHTGDRPYVCPFDGCNKKFAQSTNLKSHILT 116
Score = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 42/98 (42%), Gaps = 7/98 (7%)
Query: 20 KCMECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQ 79
+ + C K F++ + ++H L+ G +V C CGK F K+K H
Sbjct: 4 RTIACPHKGCTKMFRDNSAMRKH--LHTHG--PRVHVCAECGKAFVESSKLKRHQLVHTG 59
Query: 80 RKVFPCPV--CGKEFSRPDKMKNHMKTVHDCFMPATTP 115
K F C CGK FS ++ H++ +H P P
Sbjct: 60 EKPFQCTFEGCGKRFSLDFNLRTHVR-IHTGDRPYVCP 96
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 34.3 bits (77), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 81 KVFPCPVCGKEFSRPDKMKNHMKTVHDCFMP 111
K + C CGK FSRPD + H+K VH P
Sbjct: 11 KPYICQSCGKGFSRPDHLNGHIKQVHTSERP 41
Score = 29.6 bits (65), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMK 75
K + C CGK FSRPD + H+K
Sbjct: 11 KPYICQSCGKGFSRPDHLNGHIK 33
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 33.9 bits (76), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 58 PVCGKEFSRPDKMKNHMKTGCQRKVFPCPV--CGKEFSRPDKMKNHMKT 104
P CGK + + +K H +T K F C C + F+R D++ H +T
Sbjct: 23 PGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRT 71
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 13/85 (15%)
Query: 25 AKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRP-DKMKNHMKTGCQRKVF 83
++++ +KT ++ ++ HEGC K FS D+ K+ +T K +
Sbjct: 80 SRLENLKTHLRSHTGEKPYMCEHEGC----------SKAFSNASDRAKHQNRTHSNEKPY 129
Query: 84 PC--PVCGKEFSRPDKMKNHMKTVH 106
C P C K ++ P ++ H+KTVH
Sbjct: 130 VCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 8/63 (12%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPC--PVCGKEFSRPDKMKNHMKTVHD------CFMP 111
C K +SR + +K H+++ K + C C K FS H H C +P
Sbjct: 75 CRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLP 134
Query: 112 ATT 114
T
Sbjct: 135 GCT 137
>pdb|2J7J|A Chain A, Invariance Of The Zinc Finger Module: A Comparison Of The
Free Structure With Those In Nucleic-Acid Complexes
Length = 85
Score = 32.7 bits (73), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCP--VCGKEFSRPDKMKNHMKT 104
CGK F + +++K H + Q+ + CP C K FS P ++K H K
Sbjct: 9 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKV 55
>pdb|1UN6|B Chain B, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|C Chain C, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|D Chain D, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|2HGH|A Chain A, Transcription Factor Iiia Zinc Fingers 4-6 Bound To 5s
Rrna 55mer (Nmr Structure)
Length = 87
Score = 32.7 bits (73), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCP--VCGKEFSRPDKMKNHMKT 104
CGK F + +++K H + Q+ + CP C K FS P ++K H K
Sbjct: 9 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKV 55
>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
Length = 190
Score = 32.3 bits (72), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 60 CGKEFSRPDKMKNHMKTGCQRKVFPCP--VCGKEFSRPDKMKNHMKT 104
CGK F + +++K H + Q+ + CP C K FS P ++K H K
Sbjct: 112 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKV 158
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 32.3 bits (72), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 23/51 (45%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMK 103
K + C C F + +H K + C +CG +F+RP +K H +
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2 Domains
Of Zinc Finger Protein 692
Length = 78
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 5/67 (7%)
Query: 57 CPVCGKEFSRPDKMKNHMKTGCQRKV---FPCPVCGKEFSRPDKMKNHMKTVHDCFMPAT 113
C +CG + + H + + FPC CGK F +PD + H H + A
Sbjct: 10 CEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHPALLLA- 68
Query: 114 TPQGQRG 120
PQ G
Sbjct: 69 -PQESSG 74
Score = 31.2 bits (69), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 19/42 (45%)
Query: 32 TFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNH 73
T + K S H + E FPC CGK F +PD + H
Sbjct: 16 TCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAH 57
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 45
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 81 KVFPCPVCGKEFSRPDKMKNHMKTVHDCFMPATTPQ 116
K + CPVCG F R D+M H+++ HD + + P
Sbjct: 9 KPYSCPVCGLRFKRKDRMSYHVRS-HDGSVGKSGPS 43
Score = 29.6 bits (65), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKT 76
K + CPVCG F R D+M H+++
Sbjct: 9 KPYSCPVCGLRFKRKDRMSYHVRS 32
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 56 PC--PVCGKEFSRPDKMKNHMK-TGCQRKVFPCP--VCGKEFSRPDKMKNHMKTVHD 107
PC P CG+ FS + +H K +K F CP CGK F+ +K HMK D
Sbjct: 9 PCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSD 65
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 30/77 (38%), Gaps = 9/77 (11%)
Query: 22 MECAKVDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCP--VCGKEFSRPDKMKNHMKTGCQ 79
M C + F N+ H H +K F CP CGK F+ +K HMK
Sbjct: 8 MPCDFPGCGRIFSNRQYLNHHKKYQH--IHQKSFSCPEPACGKSFNFKKHLKEHMKLHSD 65
Query: 80 RKVFPCPVCGKEFSRPD 96
+ + C EFS P
Sbjct: 66 TRDYIC-----EFSGPS 77
>pdb|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human Zinc
Finger Protein 512
Length = 96
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 4/67 (5%)
Query: 45 LYHEGCQRKVFPCPVCGKEFSRP--DKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHM 102
Y E + CP C + R + +K HM+ C++++F C CGK+ MK H+
Sbjct: 25 WYLEIVDKGSVSCPTC-QAVGRKTIEGLKKHMEN-CKQEMFTCHHCGKQLRSLAGMKYHV 82
Query: 103 KTVHDCF 109
H+
Sbjct: 83 MANHNSL 89
>pdb|2KFQ|A Chain A, Nmr Structure Of Fp1
Length = 32
Score = 30.0 bits (66), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTG 77
F CP C K F R D + H+KT
Sbjct: 3 FACPACPKRFMRSDALSKHIKTA 25
Score = 29.6 bits (65), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 83 FPCPVCGKEFSRPDKMKNHMKT 104
F CP C K F R D + H+KT
Sbjct: 3 FACPACPKRFMRSDALSKHIKT 24
>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 = 29.6 bits (65), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
+ C CG +P +K H++T + + C C F + HMK+
Sbjct: 2 YICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKS 51
>pdb|1WJP|A Chain A, Solution Structure Of Zf-C2h2 Domains From Human Zinc
Finger Protein 295
Length = 107
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 47 HEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVH 106
HE R CP C F P+ +K ++ C+ K C C + F + H VH
Sbjct: 35 HERLCRNAAVCPYCSLRFFSPE-LKQEHESKCEYKKLTCLECMRTFKSSFSIWRHQVEVH 93
Query: 107 D 107
+
Sbjct: 94 N 94
>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 = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 80 RKVFPCPVCGKEFSRPDKMKNHMKTVHDCFMPATTPQG 117
K + C VCGKEFS+ ++ H + VH P+ G
Sbjct: 10 EKCYKCDVCGKEFSQSSHLQTHQR-VHTGEKPSGPSSG 46
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 52 RKVFPCPVCGKEFSRPDKMKNHMK 75
K + C VCGKEFS+ ++ H +
Sbjct: 10 EKCYKCDVCGKEFSQSSHLQTHQR 33
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRKV--FPCPVCGKEFSRPDKMKNHMKTVHDCFM 110
K + C +C F++ MK H+ V F CP C +R + H++ H
Sbjct: 14 KPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQHSYSG 73
Query: 111 PAT 113
P++
Sbjct: 74 PSS 76
>pdb|1XF7|A Chain A, High Resolution Nmr Structure Of The Wilms' Tumor
Suppressor Protein (Wt1) Finger 3
Length = 29
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKT 76
K F C C ++FSR D +K H +T
Sbjct: 1 KPFQCKTCQRKFSRSDHLKTHTRT 24
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 81 KVFPCPVCGKEFSRPDKMKNHMKT 104
K F C C ++FSR D +K H +T
Sbjct: 1 KPFQCKTCQRKFSRSDHLKTHTRT 24
>pdb|2ELO|A Chain A, Solution Structure Of The 12th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 37
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 85 CPVCGKEFSRPDKMKNHMKTVH 106
CPVC K FS +K+H+KT H
Sbjct: 12 CPVCEKSFSEDRLIKSHIKTNH 33
Score = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 57 CPVCGKEFSRPDKMKNHMKTG 77
CPVC K FS +K+H+KT
Sbjct: 12 CPVCEKSFSEDRLIKSHIKTN 32
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 21/50 (42%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKT 104
F C CGK + + H + + CP CGK F ++ H+K
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKV 54
>pdb|1VA3|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna
Binding Domain (Zinc Finger 3)
pdb|1SP1|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f3, Minimized Average Structure
Length = 29
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMKTGCQRK 81
K F CP C K F R D + H+KT +K
Sbjct: 1 KKFACPECPKRFMRSDHLSKHIKTHQNKK 29
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 81 KVFPCPVCGKEFSRPDKMKNHMKT 104
K F CP C K F R D + H+KT
Sbjct: 1 KKFACPECPKRFMRSDHLSKHIKT 24
>pdb|3UK3|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|3UK3|D Chain D, Crystal Structure Of Znf217 Bound To Dna
pdb|4F2J|C Chain C, Crystal Structure Of Znf217 Bound To Dna, P6522 Crystal
Form
pdb|4IS1|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|4IS1|D Chain D, Crystal Structure Of Znf217 Bound To Dna
Length = 57
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 57 CPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRPDKMKNHMKTVH 106
C CGK F + H++T K + C C ++ ++ H++ H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
>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 = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 81 KVFPCPVCGKEFSRPDKMKNHMKTVH 106
K + C C K F+ +K H+KT H
Sbjct: 1 KTYQCQYCEKRFADSSNLKTHIKTKH 26
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Transcriptional Repressor Ctcf
Length = 86
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 16 EGIYKCMECAKVDVIKTFKNKYSFQRHAFLYHE-GCQRKVFPCPVCGKEFSRPDKMKNHM 74
E Y C C KTF+ K H YH+ F C CGK F+R + M H
Sbjct: 13 EKPYACSHC-----DKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHA 67
>pdb|3UNW|A Chain A, Crystal Structure Of Human Gac In Complex With Glutamate
pdb|3UNW|B Chain B, Crystal Structure Of Human Gac In Complex With Glutamate
pdb|3UNW|C Chain C, Crystal Structure Of Human Gac In Complex With Glutamate
pdb|3UNW|D Chain D, Crystal Structure Of Human Gac In Complex With Glutamate
pdb|3UO9|A Chain A, Crystal Structure Of Human Gac In Complex With Glutamate
And Bptes
pdb|3UO9|B Chain B, Crystal Structure Of Human Gac In Complex With Glutamate
And Bptes
pdb|3UO9|C Chain C, Crystal Structure Of Human Gac In Complex With Glutamate
And Bptes
pdb|3UO9|D Chain D, Crystal Structure Of Human Gac In Complex With Glutamate
And Bptes
Length = 534
Score = 26.9 bits (58), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 85 CPVCGKEFSRPDKMKNHMKTVHDCFM 110
CP+ G+ P+ ++N + +H C M
Sbjct: 370 CPITGERVLSPEAVRNTLSLMHSCGM 395
>pdb|4ESJ|A Chain A, Restriction Endonuclease Dpni In Complex With Target Dna
pdb|4ESJ|B Chain B, Restriction Endonuclease Dpni In Complex With Target Dna
Length = 257
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 9/81 (11%)
Query: 27 VDVIKTFKNKYSFQRHAFLYHEGCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCP 86
+++++T+K+ + Q+ L + R+ + CP CG + NH + F C
Sbjct: 10 LELVETYKS--NSQKARILTEDWVYRQSY-CPNCG------NNPLNHFENNRPVADFYCN 60
Query: 87 VCGKEFSRPDKMKNHMKTVHD 107
C +EF K N T++D
Sbjct: 61 HCSEEFELKSKKGNFSSTIND 81
>pdb|3SS3|A Chain A, Crystal Structure Of Mouse Glutaminase C, Ligand-Free Form
pdb|3SS3|B Chain B, Crystal Structure Of Mouse Glutaminase C, Ligand-Free Form
pdb|3SS3|C Chain C, Crystal Structure Of Mouse Glutaminase C, Ligand-Free Form
pdb|3SS3|D Chain D, Crystal Structure Of Mouse Glutaminase C, Ligand-Free Form
pdb|3SS4|A Chain A, Crystal Structure Of Mouse Glutaminase C, Phosphate-Bound
Form
pdb|3SS4|B Chain B, Crystal Structure Of Mouse Glutaminase C, Phosphate-Bound
Form
pdb|3SS4|C Chain C, Crystal Structure Of Mouse Glutaminase C, Phosphate-Bound
Form
pdb|3SS4|D Chain D, Crystal Structure Of Mouse Glutaminase C, Phosphate-Bound
Form
pdb|3SS5|A Chain A, Crystal Structure Of Mouse Glutaminase C,
L-Glutamate-Bound Form
pdb|3SS5|B Chain B, Crystal Structure Of Mouse Glutaminase C,
L-Glutamate-Bound Form
pdb|3SS5|C Chain C, Crystal Structure Of Mouse Glutaminase C,
L-Glutamate-Bound Form
pdb|3SS5|D Chain D, Crystal Structure Of Mouse Glutaminase C,
L-Glutamate-Bound Form
Length = 479
Score = 26.6 bits (57), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 85 CPVCGKEFSRPDKMKNHMKTVHDCFM 110
CP+ G+ P+ ++N + +H C M
Sbjct: 321 CPITGERVLSPEAVRNTLSLMHSCGM 346
>pdb|2K5C|A Chain A, Nmr Structure For Pf0385
Length = 95
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 15/51 (29%)
Query: 57 CPVCG---------------KEFSRPDKMKNHMKTGCQRKVFPCPVCGKEF 92
CP+CG + F K + + VF CPVCG+EF
Sbjct: 11 CPICGSPLKWEELIEEMLIIENFEEIVKDRERFLAQVEEFVFKCPVCGEEF 61
>pdb|4IJD|A Chain A, Crystal Structure Of Methyltransferase Domain Of Human Pr
Domain- Containing Protein 9
pdb|4IJD|B Chain B, Crystal Structure Of Methyltransferase Domain Of Human Pr
Domain- Containing Protein 9
Length = 221
Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 27/121 (22%), Positives = 49/121 (40%), Gaps = 18/121 (14%)
Query: 1 MSVRGLNLFRYASVTEGIY----KCMECAKVDVIKTFKNKYSFQRHAFLYHE-------G 49
+ +G N + Y + + + + CA+ D +N +FQ H +++ G
Sbjct: 100 LITKGRNCYEYVDGKDKSWANWXRYVNCARDD---EEQNLVAFQYHRQIFYRTCRVIRPG 156
Query: 50 CQRKVFPCPVCGKEFS--RPDKMKNHMKTGCQRK--VFPCPVCGKEFSRPDKMKNHMKTV 105
C+ V+ G+E K K + G + K + PCP C FS + H++
Sbjct: 157 CELLVWYGDEYGQELGIKWGSKWKKELXAGREPKPEIHPCPSCCLAFSSQKFLSQHVERN 216
Query: 106 H 106
H
Sbjct: 217 H 217
>pdb|3CZD|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
L-Glutamate
pdb|3VOY|A Chain A, Crystal Structure Of Human Glutaminase In Apo Form
pdb|3VOZ|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
Bptes
pdb|3VP0|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
L-Glutamine
pdb|3VP1|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
L-Glutamate And Bptes
pdb|3VP2|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
Inhibitor 2
pdb|3VP3|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
Inhibitor 3
Length = 315
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 85 CPVCGKEFSRPDKMKNHMKTVHDCFM 110
CP+ G+ P+ ++N + +H C M
Sbjct: 222 CPITGERVLSPEAVRNTLSLMHSCGM 247
>pdb|2EOJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
355- 385) Of Human Zinc Finger Protein 268
Length = 44
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKT 76
+ C CGK FSR D++ +H KT
Sbjct: 13 YECCECGKVFSRKDQLVSHQKT 34
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 83 FPCPVCGKEFSRPDKMKNHMKT 104
+ C CGK FSR D++ +H KT
Sbjct: 13 YECCECGKVFSRKDQLVSHQKT 34
>pdb|3VP4|A Chain A, Crystal Structure Of Human Glutaminase In Complex With
Inhibitor 4
Length = 316
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 85 CPVCGKEFSRPDKMKNHMKTVHDCFM 110
CP+ G+ P+ ++N + +H C M
Sbjct: 223 CPITGERVLSPEAVRNTLSLMHSCGM 248
>pdb|2EL5|A Chain A, Solution Structure Of The 18th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 42
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKT 76
+ C CGK F+R D++ +H +T
Sbjct: 11 YECSECGKAFNRKDQLISHQRT 32
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 83 FPCPVCGKEFSRPDKMKNHMKT 104
+ C CGK F+R D++ +H +T
Sbjct: 11 YECSECGKAFNRKDQLISHQRT 32
>pdb|2YUC|A Chain A, Solution Structure Of The Traf-Type Zinc Finger Domains
(102-164) From Human Tnf Receptor Associated Factor 4
Length = 76
Score = 26.2 bits (56), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 50 CQRKVFPCPV-CGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFS 93
C V PCP C + SR D + H++ C ++ C CG +FS
Sbjct: 12 CSFNVIPCPNRCPMKLSRRD-LPAHLQHDCPKRRLKCEFCGCDFS 55
>pdb|3MJH|B Chain B, Crystal Structure Of Human Rab5a In Complex With The C2h2
Zinc Finger Of Eea1
pdb|3MJH|D Chain D, Crystal Structure Of Human Rab5a In Complex With The C2h2
Zinc Finger Of Eea1
Length = 34
Score = 26.2 bits (56), Expect = 6.4, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 83 FPCPVCGKEFSRPDKMKNHMKTVHD 107
F CP C K D++ H + VHD
Sbjct: 6 FICPQCMKSLGSADELFKHYEAVHD 30
>pdb|2EPP|A Chain A, Solution Structure Of The First C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 278
Length = 66
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 7/23 (30%), Positives = 15/23 (65%)
Query: 51 QRKVFPCPVCGKEFSRPDKMKNH 73
+ + PC +CGK F+ ++++ H
Sbjct: 10 EAGILPCGLCGKVFTDANRLRQH 32
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 7/23 (30%), Positives = 15/23 (65%)
Query: 79 QRKVFPCPVCGKEFSRPDKMKNH 101
+ + PC +CGK F+ ++++ H
Sbjct: 10 EAGILPCGLCGKVFTDANRLRQH 32
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQRK 81
F C VC + F+R + +K H ++ K
Sbjct: 3 FVCEVCTRAFARQEALKRHYRSHTNEK 29
>pdb|1P7A|A Chain A, Solution Stucture Of The Third Zinc Finger From Bklf
Length = 37
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 53 KVFPCPVCGKEFSRPDKMKNHMK 75
K F CP C + FSR D + H K
Sbjct: 10 KPFQCPDCDRSFSRSDHLALHRK 32
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 81 KVFPCPVCGKEFSRPDKMKNHMK 103
K F CP C + FSR D + H K
Sbjct: 10 KPFQCPDCDRSFSRSDHLALHRK 32
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 25.8 bits (55), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 55 FPCPVCGKEFSRPDKMKNHMKTGCQRK 81
F C VC + F+R + +K H ++ K
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEK 29
>pdb|1WII|A Chain A, Solution Structure Of Rsgi Ruh-025, A Duf701 Domain From
Mouse Cdna
Length = 85
Score = 25.8 bits (55), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 19/47 (40%), Gaps = 4/47 (8%)
Query: 49 GCQRKVFPCPVCGKEFSRPDKMKNHMKTGCQRKVFPCPVCGKEFSRP 95
G F CP C E S KM TG V C VC +EF P
Sbjct: 18 GTLETQFTCPFCNHEKSCDVKMDRARNTG----VISCTVCLEEFQTP 60
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 0.138 0.454
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,228,496
Number of Sequences: 62578
Number of extensions: 162460
Number of successful extensions: 839
Number of sequences better than 100.0: 100
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 594
Number of HSP's gapped (non-prelim): 211
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)