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= psy370
(111 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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVC 83
+CP C K ++D++ H TH E Y C C F+ ++++R H +H E+ + C
Sbjct: 51 KCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTG--EKPYAC 108
Query: 84 EICGHVVDEM 93
CG ++
Sbjct: 109 PECGKSFSQL 118
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCE 84
CP C K ++ H TH E Y C C F+ K D+ +H +H E+ + C
Sbjct: 24 CPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTG--EKPYKCP 81
Query: 85 ICG 87
CG
Sbjct: 82 ECG 84
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVC 83
+CP C K ++ + + H TH E Y+C C F+ + +R H +H E+ + C
Sbjct: 79 KCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTG--EKPYKC 136
Query: 84 EICG 87
CG
Sbjct: 137 PECG 140
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCE 84
CP C K ++ + H TH E Y C C F+ + ++ H H E+ + C
Sbjct: 108 CPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNL--HTHQRTHTGEKPYKCP 165
Query: 85 ICG 87
CG
Sbjct: 166 ECG 168
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 23/54 (42%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSME 77
+CP C K ++ + H TH E Y C C F+ + + H +H +
Sbjct: 135 KCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRTHTGKK 188
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCE 84
C +C KI+ D H +H E YSC C ++F K M HV SH + ++C+
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 85 ICG 87
CG
Sbjct: 70 SCG 72
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 3/81 (3%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCE 84
C +C K + HL H + Y C++C +F+ KSDM+KH H E+ C+
Sbjct: 4 CKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTG--EKPHKCQ 61
Query: 85 ICGHVVDEMP-VATQSSKYPG 104
+CG + + T S K+ G
Sbjct: 62 VCGKAFSQSSNLITHSRKHTG 82
>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 = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVC 83
+CP C K ++ Q H TH E Y C C F+ SD++KH +H E+ + C
Sbjct: 6 KCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTG--EKPYKC 63
Query: 84 EICG 87
CG
Sbjct: 64 PECG 67
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 22/50 (44%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSH 73
+CP C K ++ Q H TH E Y C C F+ + +H +H
Sbjct: 34 KCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRTH 83
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 48 EMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCEICG 87
E Y C C F+ S+++KH +H E+ + C CG
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKHQRTHTG--EKPYKCPECG 39
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 4/63 (6%)
Query: 26 PVCKKIYTDQQLFQNHLETHDNEMDYSC--EHCDMQFNCKSDMRKHVHSHLSMEERGFVC 83
P C K+YT + HL TH E Y C E CD +F ++ +H H + F C
Sbjct: 21 PGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKP--FQC 78
Query: 84 EIC 86
+C
Sbjct: 79 GVC 81
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 26 PVCKKIYTDQQLFQNHLETHDNEMDYSCE--HCDMQFNCKSDMRKHVHSHLS 75
P C KI+ + + H TH E + CE CD +F SD +KH+H H S
Sbjct: 96 PGCGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTS 147
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVC 83
+C VC K ++ + + H+ H Y C+ CD S + KH+ H +ER F C
Sbjct: 10 KCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIH--SDERPFKC 67
Query: 84 EIC 86
+IC
Sbjct: 68 QIC 70
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 19/50 (38%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSH 73
+C C D HL H +E + C+ C S + H+ SH
Sbjct: 38 KCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPYASRNSSQLTVHLRSH 87
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ + H+ H + + C C F+ ++ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTG--EKPFA 64
Query: 83 CEICGHVVDEMPVATQSSK 101
C+ICG + T+ +K
Sbjct: 65 CDICGRKFATLHTRTRHTK 83
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ Q H+ TH E ++C+ C +F +H HL ++
Sbjct: 36 QCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTRTRHTKIHLRQKD 90
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++D H+ H + + C C F+ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 64
Query: 83 CEICG 87
C+ICG
Sbjct: 65 CDICG 69
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ H+ TH E ++C+ C +F + ++H HL ++
Sbjct: 36 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%)
Query: 22 ASQCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSH 73
+ +C C K + HL TH E Y CE C+ K+ +R H+ H
Sbjct: 4 SRECSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 36/79 (45%), Gaps = 4/79 (5%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ + H+ H + + C C F+ + + +H+ +H E+ F
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTG--EKPFA 64
Query: 83 CEICGHVVDEMPVATQSSK 101
C+ICG + + +K
Sbjct: 65 CDICGRKFATLHTRDRHTK 83
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 25/55 (45%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ H+ TH E ++C+ C +F +H HL ++
Sbjct: 36 QCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFATLHTRDRHTKIHLRQKD 90
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHVHSHLSMEERGFVCEI 85
C+K Y+ + + HL +H E Y CEH C F+ SD KH + E+ +VC++
Sbjct: 75 CRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKH-QNRTHSNEKPYVCKL 133
Query: 86 CG 87
G
Sbjct: 134 PG 135
>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 = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHV 70
C VC++ + + + H+ +H EM Y C C QF K D++ H+
Sbjct: 69 CSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHM 114
Score = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKH-VHSHLSMEERGFV 82
+CP C K + + + H H E + C C + K ++ +H + ++ E+ F
Sbjct: 9 ECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFT 68
Query: 83 CEIC 86
C +C
Sbjct: 69 CSVC 72
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ H+ TH E ++C+ C +F + ++H HL ++
Sbjct: 36 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ H+ H + + C C F+ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 64
Query: 83 CEICG 87
C+ICG
Sbjct: 65 CDICG 69
>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 = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 36/64 (56%), Gaps = 4/64 (6%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHVHSHLSMEERGFVC-- 83
C+K +T H TH E +++C+ CD++F K++M+KH + +++ +VC
Sbjct: 50 CEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHF 109
Query: 84 EICG 87
E CG
Sbjct: 110 ENCG 113
Score = 25.0 bits (53), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHVHSHLS 75
C K + + H +H ++ Y C H CD +F+ S +++H H
Sbjct: 112 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 161
>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 = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ H+ TH E ++C+ C +F + ++H HL ++
Sbjct: 36 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ H+ H + + C C F+ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 64
Query: 83 CEICG 87
C+ICG
Sbjct: 65 CDICG 69
>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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ H+ TH E ++C+ C +F + ++H HL ++
Sbjct: 36 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ H+ H + + C C F+ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 64
Query: 83 CEICG 87
C+ICG
Sbjct: 65 CDICG 69
>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 = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCE 84
C C + +T H TH +E Y+C+ C F + +R H + H +E+ F C+
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIH--SKEKPFKCQ 77
Query: 85 ICG 87
CG
Sbjct: 78 ECG 80
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQF 60
C +C K + Q ++H H E + C+ C F
Sbjct: 48 CDICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKGF 83
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEE 78
QC +C + ++ H+ TH E ++C+ C +F + ++H HL ++
Sbjct: 36 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ H+ H + + C C F+ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 64
Query: 83 CEICG 87
C+ICG
Sbjct: 65 CDICG 69
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ H+ H + + C C F+ + H+ +H E+ F
Sbjct: 6 CPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 63
Query: 83 CEICG 87
C+ICG
Sbjct: 64 CDICG 68
Score = 33.5 bits (75), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHL 74
QC +C + ++ H+ TH E ++C+ C +F + ++H HL
Sbjct: 35 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 85
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 25 CPV--CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
CPV C + ++ H+ H + + C C F+ + H+ +H E+ F
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG--EKPFA 64
Query: 83 CEICG 87
C+ICG
Sbjct: 65 CDICG 69
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHL 74
QC +C + ++ H+ TH E ++C+ C +F + ++H HL
Sbjct: 36 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHV 70
C VC + + Q+ + H +H NE Y C C+ F + + +H
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHA 50
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 29/74 (39%), Gaps = 4/74 (5%)
Query: 15 GSYTIFVASQCPVCKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHVHS 72
GS T C K YT + HL TH E Y C+ C +F ++ +H
Sbjct: 1 GSRTATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK 60
Query: 73 HLSMEERGFVCEIC 86
H R F C+ C
Sbjct: 61 HTG--HRPFQCQKC 72
>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 = 33.1 bits (74), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 25/63 (39%), Gaps = 2/63 (3%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCE 84
C VCK+ Y + H H E Y C +C+ F KH H ER + C
Sbjct: 25 CIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTG--ERRYQCL 82
Query: 85 ICG 87
CG
Sbjct: 83 ACG 85
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHV 70
C+K +T H TH E +++C+ CD++F K++M+KH
Sbjct: 41 CEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHF 85
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 4/62 (6%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSC--EHCDMQFNCKSDMRKHVHSHLSMEERGFVCEI 85
C Y Q HL H E + C E C+ F + +H +H E+ F C+
Sbjct: 11 CGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG--EKNFTCDS 68
Query: 86 CG 87
G
Sbjct: 69 DG 70
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHVHSHLSMEERGFVCEI 85
C K YT + HL TH E Y C+ C +F ++ +H H R F C+
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG--HRPFQCQK 70
Query: 86 C 86
C
Sbjct: 71 C 71
>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 = 32.0 bits (71), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRK 68
QC +C + ++ H+ TH E ++C+ C +F +SD RK
Sbjct: 5 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKF-ARSDERK 48
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 26 PVCKKIYTDQQLFQNHLETHDNEMDYSC--EHCDMQFNCKSDMRKHVHSH 73
P C K Y + H TH E +SC + C+ +F ++ +H +H
Sbjct: 23 PGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
>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 = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 37 LFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHS 72
+ + H+ TH + Y C +C+ F K ++ KH+ S
Sbjct: 16 MLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKS 51
>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 = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 4/65 (6%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSC--EHCDMQFNCKSDMRKHVHSHLSMEERGFV 82
C C K + + + H H E + C E C +F+ ++R HV H +R +V
Sbjct: 37 CAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTG--DRPYV 94
Query: 83 CEICG 87
C G
Sbjct: 95 CPFDG 99
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVC--EI 85
C K++ D + HL TH + + C C F S +++H H E+ F C E
Sbjct: 13 CTKMFRDNSAMRKHLHTHGPRV-HVCAECGKAFVESSKLKRHQLVHTG--EKPFQCTFEG 69
Query: 86 CG 87
CG
Sbjct: 70 CG 71
Score = 25.0 bits (53), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 52 SCEH--CDMQFNCKSDMRKHVHSHLSMEERGFVCEICGHVVDE 92
+C H C F S MRKH+H+H R VC CG E
Sbjct: 7 ACPHKGCTKMFRDNSAMRKHLHTH---GPRVHVCAECGKAFVE 46
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSH 73
+C C+ + + +H H E Y C C QFN ++++ H H
Sbjct: 19 KCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIH 68
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 51 YSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCEICG 87
Y C+ C F K ++ H H E+ + C ICG
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTG--EKPYRCNICG 52
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 20/56 (35%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERG 80
C C K ++ + H H E Y C C F+ S + H H S G
Sbjct: 17 CVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTSGPSSG 72
>pdb|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human
Zinc Finger Protein 512
Length = 96
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 25 CPVCKKIYTDQ-QLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHV 70
CP C+ + + + H+E EM ++C HC Q + M+ HV
Sbjct: 37 CPTCQAVGRKTIEGLKKHMENCKQEM-FTCHHCGKQLRSLAGMKYHV 82
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Transcriptional Repressor Ctcf
Length = 86
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 43 ETHDNEMDYSCEHCDMQFNCKS--DMRKHVHSHLSMEERGFVCEICG 87
TH E Y+C HCD F K DM + + FVC CG
Sbjct: 8 RTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCG 54
>pdb|1H79|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dttp
pdb|1H7A|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Datp
pdb|1H7B|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases,
Native Nrdd
pdb|1H78|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dctp.
pdb|1HK8|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dgtp
Length = 605
Score = 28.9 bits (63), Expect = 0.83, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 16/87 (18%)
Query: 32 YTDQQLFQNHLETHDNEMDYSCEH---------CDMQFNCKSDMRKHVHSHLSMEERGFV 82
Y + +N+L+ + DY+ +H D F C S ++ E GFV
Sbjct: 507 YVELPDMKNNLKGLEAVWDYAAQHLDYFGVNMPVDKCFTCGST------HEMTPTENGFV 560
Query: 83 CEICGHV-VDEMPVATQSSKYPGQQNQ 108
C ICG +M ++ Y G N+
Sbjct: 561 CSICGETDPKKMNTIRRTCAYLGNPNE 587
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 28.5 bits (62), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 9/61 (14%)
Query: 51 YSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCEICG-------HVVDEMPVATQSSKYP 103
Y C+ C F+ SD+ KH +H E+ + C+ CG H++ V T S
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTG--EKPYKCDECGKAFIQRSHLIGHHRVHTGSGPSS 76
Query: 104 G 104
G
Sbjct: 77 G 77
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 15/37 (40%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQF 60
+C C K ++ H TH E Y C+ C F
Sbjct: 20 KCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAF 56
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 19/49 (38%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSH 73
C C K Y D H H SC C F +S++ +H+ H
Sbjct: 7 CNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVH 55
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 20 FVASQCPVCKKIYTDQQLFQNHLETHDNE 48
+ CP C K + DQ HL+ H N+
Sbjct: 30 YRPRSCPECGKCFRDQSEVNRHLKVHQNK 58
>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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 10/47 (21%), Positives = 21/47 (44%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVH 71
CPVC + + + + HL + C++C F + +H++
Sbjct: 31 CPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHIN 77
>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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 26 PVCKKIYTDQQLFQNHLETHDNEMDYSCE--HCDMQFNCKSDMRKHVHSHLSMEERGFVC 83
P C K Y Q H H E Y C+ C+ +F+ +++H H ++ F C
Sbjct: 12 PGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKP--FQC 69
Query: 84 EIC 86
+ C
Sbjct: 70 KTC 72
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNEMDYSCE 54
QC C++ ++ + H TH E +SC
Sbjct: 68 QCKTCQRKFSRSDHLKTHTRTHTGEKPFSCR 98
>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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 2/49 (4%)
Query: 24 QCPVCKKIYTDQQLFQNHLET--HDNEMDYSCEHCDMQFNCKSDMRKHV 70
+C VC ++YT F H T N Y C C +F K +M HV
Sbjct: 12 RCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHV 60
>pdb|2ELO|A Chain A, Solution Structure Of The 12th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 37
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 20/25 (80%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEM 49
CPVC+K +++ +L ++H++T+ E+
Sbjct: 12 CPVCEKSFSEDRLIKSHIKTNHPEV 36
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 20/48 (41%)
Query: 25 CPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHS 72
C VC K + + H++ H Y C C +F + +HV S
Sbjct: 40 CGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRHVTS 87
Score = 26.2 bits (56), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 2/59 (3%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKSDMRKHVHSHLSMEERGFVCEIC 86
C K +T + H+ H Y C C +F K + H+ H ++ + C IC
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKP--YECNIC 71
>pdb|1KTE|A Chain A, Crystal Structure Of Thioltransferase At 2.2 Angstrom
Resolution
Length = 105
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 8 MQSEIIPGSYTIFVASQCPVCKK 30
+ S+I PG +F+ CP C+K
Sbjct: 5 VNSKIQPGKVVVFIKPTCPFCRK 27
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of
Zinc Finger Protein 278
Length = 45
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 47 NEMDYSCEHCDMQFNCKSDMRKHVHSH 73
E YSC C ++F K M HV SH
Sbjct: 7 GEKPYSCPVCGLRFKRKDRMSYHVRSH 33
>pdb|3FK4|A Chain A, Crystal Structure Of Rubisco-Like Protein From Bacillus
Cereus Atcc 14579
pdb|3FK4|B Chain B, Crystal Structure Of Rubisco-Like Protein From Bacillus
Cereus Atcc 14579
Length = 414
Score = 26.6 bits (57), Expect = 3.4, Method: Composition-based stats.
Identities = 15/75 (20%), Positives = 37/75 (49%), Gaps = 6/75 (8%)
Query: 4 MKPQMQSEIIPG------SYTIFVASQCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCD 57
+K Q++ + I G +F + P+ K+I + +++ Q+ ET+ ++ Y+
Sbjct: 158 LKTQLRDQAIGGVDIVKDDEILFENALTPLTKRIVSGKEVLQSVYETYGHKTLYAVNLTG 217
Query: 58 MQFNCKSDMRKHVHS 72
F+ K + ++ V +
Sbjct: 218 RTFDLKENAKRAVQA 232
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 24 QCPVCKKIYTDQQLFQNH-LETH-DNEMDYSCEHCDMQFNCKSDMRKHV 70
+C +C +T + H L+ H +N + C HCD KSD+ H+
Sbjct: 17 ECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHL 65
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 26 PVCKKIYTDQQLFQNHLETHDNEMDYSCE 54
P C K + ++ + H++ H + DY CE
Sbjct: 44 PACGKSFNFKKHLKEHMKLHSDTRDYICE 72
>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 = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 19 IFVASQCPVCKKIYTDQQLFQNHLETHDNEMDYSCEHCDMQFNCKS 64
++ S CP C + L NH E + D+ C HC +F KS
Sbjct: 31 VYRQSYCPNC----GNNPL--NHFENNRPVADFYCNHCSEEFELKS 70
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 25.8 bits (55), Expect = 5.8, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 18 TIFVASQCPVC---KKIYTDQQLFQNHLETHDNE 48
T+ S+C + ++I T Q +FQN+L+T NE
Sbjct: 1041 TLATISRCGMVWFSEEILTTQMIFQNYLDTLSNE 1074
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 25.8 bits (55), Expect = 5.8, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 18 TIFVASQCPVC---KKIYTDQQLFQNHLETHDNE 48
T+ S+C + ++I T Q +FQN+L+T NE
Sbjct: 1041 TLATISRCGMVWFSEEILTTQMIFQNYLDTLSNE 1074
>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 = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKH 69
C K + + H +H ++ Y C H CD +F+ S +++H
Sbjct: 9 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRH 52
>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 = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 28 CKKIYTDQQLFQNHLETHDNEMDYSCEH--CDMQFNCKSDMRKHVHSH 73
C K + + H +H ++ Y C H CD +F+ S +++H H
Sbjct: 9 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVH 56
>pdb|2M0E|A Chain A, Solution Structure Of Miz-1 Zinc Finger 6
Length = 29
Score = 25.4 bits (54), Expect = 8.9, Method: Composition-based stats.
Identities = 8/26 (30%), Positives = 17/26 (65%)
Query: 50 DYSCEHCDMQFNCKSDMRKHVHSHLS 75
++ C HCD +FN +++ H+ H++
Sbjct: 2 EHKCPHCDKKFNQVGNLKAHLKIHIA 27
>pdb|2M0D|A Chain A, Solution Structure Of Miz-1 Zinc Finger 5
Length = 30
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 24 QCPVCKKIYTDQQLFQNHLETHDNE 48
QC C + ++D HLETHD +
Sbjct: 5 QCDYCGRSFSDPTSKMRHLETHDTD 29
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
0.322 0.133 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,328,151
Number of Sequences: 62578
Number of extensions: 113215
Number of successful extensions: 440
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 63
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 128
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)