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= psy2876
(367 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 = 95.5 bits (236), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 53/163 (32%), Positives = 75/163 (46%), Gaps = 1/163 (0%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCK 65
Y C C K F +S +H H +KC C K++ +K+L RH TH + ++C
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
CG+ F L HQ H K + C +C +SF HL+ H H K + CP+C K
Sbjct: 82 ECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGK 141
Query: 125 LFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILH 167
F E +L H H + +KC C K F + L+ H H
Sbjct: 142 SFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRTH 184
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 49/161 (30%), Positives = 78/161 (48%), Gaps = 1/161 (0%)
Query: 36 CHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH-ERKFHKCTQC 94
C C K++ +L H TH + ++C CG+ F ++ L HQ H K +KC +C
Sbjct: 24 CPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPEC 83
Query: 95 EESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVF 154
+SF + +L+ H H K + CP+C K F +HL+ H H + +KC C K F
Sbjct: 84 GKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSF 143
Query: 155 VHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSH 195
+ +L H H + + C C +F+ + L H R+H
Sbjct: 144 SREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRTH 184
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 50/165 (30%), Positives = 77/165 (46%), Gaps = 2/165 (1%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFH 118
+ + C CG+ F + L HQ H K +KC +C +SF +KK L +H H K +
Sbjct: 20 KPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYK 79
Query: 119 CPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFC 178
CP+C K F ++L+ H H + + C C K F AHL H H + + C C
Sbjct: 80 CPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPEC 139
Query: 179 HLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKI 223
+F+ +++L H R+H + C CG+ F L H +
Sbjct: 140 GKSFSREDNLHTHQRTHTG-EKPYKCPECGKSFSRRDALNVHQRT 183
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 36/82 (43%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCK 65
Y C C K F + H H +KC C K++ E NL H TH + ++C
Sbjct: 106 YACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCP 165
Query: 66 SCGRRFESEELLIVHQVIHERK 87
CG+ F + L VHQ H K
Sbjct: 166 ECGKSFSRRDALNVHQRTHTGK 187
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 41/82 (50%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHN 174
K + CP+C K F S+LQ H H + +KC C K F + L KH H + +
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYK 62
Query: 175 CDFCHLTFTTDNDLIRHMRSHE 196
C C +F+ + L RH R+H+
Sbjct: 63 CPECGKSFSRSDHLSRHQRTHQ 84
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 1/87 (1%)
Query: 1 MEKTLYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRR 60
MEK YKC C K F +S++ KH H +KC C K++ +L +H TH +
Sbjct: 1 MEKP-YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEK 59
Query: 61 SFRCKSCGRRFESEELLIVHQVIHERK 87
++C CG+ F + L HQ H+ K
Sbjct: 60 PYKCPECGKSFSRSDHLSRHQRTHQNK 86
Score = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 41/82 (50%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHK 146
K +KC +C +SF +L++H H K + CP+C K F S LQ H H + +K
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYK 62
Query: 147 CLYCFKVFVHKAHLDKHLILHE 168
C C K F HL +H H+
Sbjct: 63 CPECGKSFSRSDHLSRHQRTHQ 84
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRR 60
YKC C K F +S+ KH H +KC C K++ +L RH TH ++
Sbjct: 33 YKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRTHQNKK 87
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 41/79 (51%)
Query: 117 FHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCD 176
F C C K F+ S L H+++H ++ + C YC K F K+ + KH +H + H C
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQ 61
Query: 177 FCHLTFTTDNDLIRHMRSH 195
C F+ ++LI H R H
Sbjct: 62 VCGKAFSQSSNLITHSRKH 80
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 35/73 (47%)
Query: 91 CTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYC 150
C C +SFK L HLL H + + C C K F +S ++ H +H + HKC C
Sbjct: 4 CKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVC 63
Query: 151 FKVFVHKAHLDKH 163
K F ++L H
Sbjct: 64 GKAFSQSSNLITH 76
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 37/79 (46%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCK 65
+ C C K FK+S++ H+ H+ + C C K + + ++ +H H + +C+
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQ 61
Query: 66 SCGRRFESEELLIVHQVIH 84
CG+ F LI H H
Sbjct: 62 VCGKAFSQSSNLITHSRKH 80
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 61 SFRCKSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHC 119
SF CK CG+ F+ L H +IH + + + C C + F K +K+H H K C
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKC 60
Query: 120 PKCPKLFRHESHLQNHVIVH 139
C K F S+L H H
Sbjct: 61 QVCGKAFSQSSNLITHSRKH 80
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 31/74 (41%), Gaps = 8/74 (10%)
Query: 204 CDICGEKFINDLKLKAHIKIIHN---LFTCIHCGDTLNNAKDYASHLLIIHNIESS---Q 257
C ICG+ F L H+ +IH+ + C +CG + D H IH E Q
Sbjct: 4 CKICGKSFKRSSTLSTHL-LIHSDTRPYPCQYCGKRFHQKSDMKKHTF-IHTGEKPHKCQ 61
Query: 258 QVEKNLNNMYNLLT 271
K + NL+T
Sbjct: 62 VCGKAFSQSSNLIT 75
>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 = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 40/122 (32%), Positives = 58/122 (47%), Gaps = 8/122 (6%)
Query: 1 MEKTLYKCLY--CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNV 58
ME C + C K+F+ +++ KH+ H V H C C KA+ L RH L H
Sbjct: 1 MEPRTIACPHKGCTKMFRDNSAMRKHLHTHGPRV-HVCAECGKAFVESSKLKRHQLVHTG 59
Query: 59 RRSFRC--KSCGRRFESEELLIVHQVIHER-KFHKCT--QCEESFKNKKHLKQHLLAHEK 113
+ F+C + CG+RF + L H IH + + C C + F +LK H+L H K
Sbjct: 60 EKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAK 119
Query: 114 VK 115
K
Sbjct: 120 AK 121
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 37/113 (32%), Positives = 53/113 (46%), Gaps = 8/113 (7%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ CP C K+FR S ++ H+ H VH C C K FV + L +H ++H +
Sbjct: 4 RTIACPHKGCTKMFRDNSAMRKHLHTHGP-RVHVCAECGKAFVESSKLKRHQLVHTGEKP 62
Query: 173 HNCDF--CHLTFTTDNDLIRHMRSHEEYHTKHTC--DICGEKFINDLKLKAHI 221
C F C F+ D +L H+R H + C D C +KF LK+HI
Sbjct: 63 FQCTFEGCGKRFSLDFNLRTHVRIHTG-DRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 49/111 (44%), Gaps = 4/111 (3%)
Query: 65 KSCGRRFESEELLIVHQVIHERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCP--KC 122
K C + F + H H + H C +C ++F LK+H L H K F C C
Sbjct: 11 KGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGC 70
Query: 123 PKLFRHESHLQNHVIVHDESEVHKCLY--CFKVFVHKAHLDKHLILHETSE 171
K F + +L+ HV +H + C + C K F +L H++ H ++
Sbjct: 71 GKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAKAK 121
>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 = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 47/105 (44%), Gaps = 3/105 (2%)
Query: 91 CTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK-LFRHESHLQNHV--IVHDESEVHKC 147
C C + F +K +LK H H K F CPKC K FR E+ L++ ++ +V C
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 148 LYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHM 192
C + F + L H++ H + C C F DL HM
Sbjct: 70 SVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHM 114
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 52/106 (49%), Gaps = 4/106 (3%)
Query: 36 CHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH----ERKFHKC 91
C C K + S+ L H H + F C CG+ + +E L+ H+ + + C
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 92 TQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVI 137
+ C+E+F+ + L+ H+++H + C C + F + LQ+H+I
Sbjct: 70 SVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMI 115
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 54/107 (50%), Gaps = 6/107 (5%)
Query: 64 CKSCGRRFESEELLIVHQVIH--ERKFHKCTQCEESFKNKKHLKQHLL---AHEKVKVFH 118
C +C ++F S+ L VH H E+ F +C +C + + K++L +H + +VF
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPF-ECPKCGKCYFRKENLLEHEARNCMNRSEQVFT 68
Query: 119 CPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLI 165
C C + FR L+ H++ H +KC C + F+ K L H+I
Sbjct: 69 CSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMI 115
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 45/106 (42%), Gaps = 4/106 (3%)
Query: 8 CLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRS---FRC 64
C CHK F H H +C C K Y ++NL H + + RS F C
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 65 KSCGRRFESEELLIVHQVIHERKF-HKCTQCEESFKNKKHLKQHLL 109
C F L +H V H + +KC+ C + F KK L+ H++
Sbjct: 70 SVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMI 115
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 50/119 (42%), Gaps = 14/119 (11%)
Query: 147 CLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHM------RSHEEYHT 200
C C K F+ K +L H H + C C + +L+ H RS + +
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVF-- 67
Query: 201 KHTCDICGEKFINDLKLKAHIKIIHN---LFTCIHCGDTLNNAKDYASHLLIIHNIESS 256
TC +C E F ++L+ H+ + H + C C KD SH++ +H+ SS
Sbjct: 68 --TCSVCQETFRRRMELRLHM-VSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSGPSS 123
Score = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 40/83 (48%), Gaps = 9/83 (10%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHK------CHLCTKAYPSEKNLDRHLLTHNVR 59
++C C K + + + +EH RN +++ C +C + + L H+++H
Sbjct: 36 FECPKCGKCYFRKENL---LEHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVSHTGE 92
Query: 60 RSFRCKSCGRRFESEELLIVHQV 82
++C SC ++F ++ L H +
Sbjct: 93 MPYKCSSCSQQFMQKKDLQSHMI 115
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 26/50 (52%)
Query: 5 LYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLL 54
++ C C + F++ HM H + +KC C++ + +K+L H++
Sbjct: 66 VFTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMI 115
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 45/90 (50%), Gaps = 1/90 (1%)
Query: 54 LTHNVRRSFRCKSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHE 112
L ++ F CK CGR F L++H+ H + + + C C ++F+ + HL+ H H
Sbjct: 10 LPSKTKKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHS 69
Query: 113 KVKVFHCPKCPKLFRHESHLQNHVIVHDES 142
K K F C +C K F L H +H ++
Sbjct: 70 KEKPFKCQECGKGFCQSRTLAVHKTLHMQT 99
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 38/77 (49%)
Query: 8 CLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSC 67
C +C + F KS + H H + C +C KA+ + +L H H+ + F+C+ C
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQEC 79
Query: 68 GRRFESEELLIVHQVIH 84
G+ F L VH+ +H
Sbjct: 80 GKGFCQSRTLAVHKTLH 96
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 175 CDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHN---LFTCI 231
C FC FT +L+ H R+H + +TCDIC + F L+ H + IH+ F C
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTD-ERPYTCDICHKAFRRQDHLRDH-RYIHSKEKPFKCQ 77
Query: 232 HCGDTLNNAKDYASH 246
CG ++ A H
Sbjct: 78 ECGKGFCQSRTLAVH 92
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 36 CHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHER-KFHKCTQC 94
C C + + NL H TH R + C C + F ++ L H+ IH + K KC +C
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQEC 79
Query: 95 EESFKNKKHLKQHLLAH 111
+ F + L H H
Sbjct: 80 GKGFCQSRTLAVHKTLH 96
Score = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 7/77 (9%)
Query: 147 CLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKH---T 203
C +C + F +L H H + CD CH F + H+R H H+K
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQD----HLRDHRYIHSKEKPFK 75
Query: 204 CDICGEKFINDLKLKAH 220
C CG+ F L H
Sbjct: 76 CQECGKGFCQSRTLAVH 92
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 30/83 (36%)
Query: 109 LAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHE 168
L + K F C C + F +L H H + + C C K F + HL H +H
Sbjct: 10 LPSKTKKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHS 69
Query: 169 TSEMHNCDFCHLTFTTDNDLIRH 191
+ C C F L H
Sbjct: 70 KEKPFKCQECGKGFCQSRTLAVH 92
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 38/77 (49%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRR 70
C + F + T+ D H+ H +C +C + + + +L+ H+ TH + F C CGR+
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRK 71
Query: 71 FESEELLIVHQVIHERK 87
F + H IH R+
Sbjct: 72 FATLHTRTRHTKIHLRQ 88
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F +++L H+ +H + +C C + F +A L+ H+ H +
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F T + RH + H
Sbjct: 63 FACDICGRKFATLHTRTRHTKIH 85
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 32/74 (43%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F K +LD H+ +H + C C F+ L H+R+H CDICG
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF H KI
Sbjct: 71 KFATLHTRTRHTKI 84
Score = 34.7 bits (78), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 26/62 (41%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F K +L H+ H K F C C + F ++ L H+ H + C C +
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRK 71
Query: 154 FV 155
F
Sbjct: 72 FA 73
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 32/70 (45%), Gaps = 3/70 (4%)
Query: 60 RSFRC--KSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKV 116
R + C +SC RRF + L H IH +K +C C +F + L H+ H K
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKP 62
Query: 117 FHCPKCPKLF 126
F C C + F
Sbjct: 63 FACDICGRKF 72
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 44/89 (49%), Gaps = 4/89 (4%)
Query: 112 EKVKVFHC--PKCPKLFRHESHLQNHVIVHDESEVHKCLY--CFKVFVHKAHLDKHLILH 167
EK ++ +C P C K++ SHL+ H+ H + +KC + C F L +H H
Sbjct: 11 EKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKH 70
Query: 168 ETSEMHNCDFCHLTFTTDNDLIRHMRSHE 196
++ C C+ +F+ + L HM+ H+
Sbjct: 71 TGAKPFQCGVCNRSFSRSDHLALHMKRHQ 99
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 34/77 (44%), Gaps = 3/77 (3%)
Query: 39 CTKAYPSEKNLDRHLLTHNVRRSFRC--KSCGRRFESEELLIVHQVIH-ERKFHKCTQCE 95
CTK Y +L HL TH + ++C + C RF + L H H K +C C
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCN 82
Query: 96 ESFKNKKHLKQHLLAHE 112
SF HL H+ H+
Sbjct: 83 RSFSRSDHLALHMKRHQ 99
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 2/77 (2%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCG 68
C KV+ KS+ H+ H +KC C + L RH H + F+C C
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCN 82
Query: 69 RRFESEELLIVHQVIHE 85
R F + L +H H+
Sbjct: 83 RSFSRSDHLALHMKRHQ 99
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 147 CLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTK-HTCD 205
C C K+F HL++H + H + ++C C L F + + H+RSH+ K + C
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 206 ICGEKFINDLKLKAHIKIIHN 226
CG+ F L HIK +H+
Sbjct: 70 SCGKGFSRPDHLNGHIKQVHS 90
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 91 CTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDES--EVHKCL 148
C C + F++ HL +H L+H K + CP C F+ + + HV HD S + + C
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 149 YCFKVFVHKAHLDKHL 164
C K F HL+ H+
Sbjct: 70 SCGKGFSRPDHLNGHI 85
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 3/76 (3%)
Query: 36 CHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHERKFHK---CT 92
C +C K + +L+RH L+H+ + + C CG RF+ ++ + H H+ K C
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 93 QCEESFKNKKHLKQHL 108
C + F HL H+
Sbjct: 70 SCGKGFSRPDHLNGHI 85
Score = 35.8 bits (81), Expect = 0.043, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 3/76 (3%)
Query: 64 CKSCGRRFESEELLIVHQVIHE-RKFHKCTQCEESFKNKKHLKQHLLAHEKV--KVFHCP 120
C+ CG+ F L H++ H K + C C FK K + H+ +H+ K + C
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 121 KCPKLFRHESHLQNHV 136
C K F HL H+
Sbjct: 70 SCGKGFSRPDHLNGHI 85
Score = 34.7 bits (78), Expect = 0.081, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 8 CLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHN--VRRSFRCK 65
C C K+F+ ++H H+ + C +C + + + H+ +H+ V + + C+
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 66 SCGRRFESEELLIVH 80
SCG+ F + L H
Sbjct: 70 SCGKGFSRPDHLNGH 84
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRR 70
C + F + T+ D H+ H +C +C + + L++H+ TH + F C CGR+
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRK 71
Query: 71 FESEELLIVHQVIHERK 87
F + H IH R+
Sbjct: 72 FATLHTRDRHTKIHLRQ 88
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F K +LD H+ +H + C C F+ L +H+R+H CDICG
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF H KI
Sbjct: 71 KFATLHTRDRHTKI 84
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F +++L H+ +H + +C C + F L++H+ H +
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F T + RH + H
Sbjct: 63 FACDICGRKFATLHTRDRHTKIH 85
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 30/74 (40%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F K +L H+ H K F C C + F + L H+ H + C C +
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F D+H +H
Sbjct: 72 FATLHTRDRHTKIH 85
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 32/70 (45%), Gaps = 3/70 (4%)
Query: 60 RSFRC--KSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKV 116
R + C +SC RRF + L H IH +K +C C +F L QH+ H K
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKP 62
Query: 117 FHCPKCPKLF 126
F C C + F
Sbjct: 63 FACDICGRKF 72
>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 = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F A L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 71 KFARSDERKRHTKI 84
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F + L H+ +H + +C C + F HL H+ H +
Sbjct: 3 RPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 63 FACDICGRKFARSDERKRHTKIH 85
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 35/77 (45%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRR 70
C + F +S +H+ H +C +C + + +L H+ TH + F C CGR+
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 71 FESEELLIVHQVIHERK 87
F + H IH R+
Sbjct: 72 FARSDERKRHTKIHLRQ 88
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 72 FARSDERKRHTKIH 85
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 31/75 (41%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 11 SCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 71 KFARSDERKRHTKIH 85
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F A L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 71 KFARSDERKRHTKI 84
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 3/89 (3%)
Query: 1 MEKTLYKCLY--CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNV 58
ME+ Y C C + F +S +H+ H +C +C + + +L H+ TH
Sbjct: 1 MERP-YACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 59 RRSFRCKSCGRRFESEELLIVHQVIHERK 87
+ F C CGR+F + H IH R+
Sbjct: 60 EKPFACDICGRKFARSDERKRHTKIHLRQ 88
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F + L H+ +H + +C C + F HL H+ H +
Sbjct: 3 RPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 63 FACDICGRKFARSDERKRHTKIH 85
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 31/75 (41%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 11 SCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 71 KFARSDERKRHTKIH 85
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 72 FARSDERKRHTKIH 85
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 71 KFARSDERKRHTKI 84
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 3/89 (3%)
Query: 1 MEKTLYKCLY--CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNV 58
ME+ Y C C + F +S S +H+ H +C +C + + +L H+ TH
Sbjct: 1 MERP-YACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 59 RRSFRCKSCGRRFESEELLIVHQVIHERK 87
+ F C CGR+F + H IH R+
Sbjct: 60 EKPFACDICGRKFARSDERKRHTKIHLRQ 88
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F L H+ +H + +C C + F HL H+ H +
Sbjct: 3 RPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 63 FACDICGRKFARSDERKRHTKIH 85
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 31/75 (41%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 11 SCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 71 KFARSDERKRHTKIH 85
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 72 FARSDERKRHTKIH 85
>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 = 3e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F ++L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 71 KFARSDERKRHTKI 84
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F S+L H+ +H + +C C + F HL H+ H +
Sbjct: 3 RPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 63 FACDICGRKFARSDERKRHTKIH 85
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 3/89 (3%)
Query: 1 MEKTLYKCLY--CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNV 58
ME+ Y C C + F S++ +H+ H +C +C + + +L H+ TH
Sbjct: 1 MERP-YACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 59 RRSFRCKSCGRRFESEELLIVHQVIHERK 87
+ F C CGR+F + H IH R+
Sbjct: 60 EKPFACDICGRKFARSDERKRHTKIHLRQ 88
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 30/74 (40%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F + +L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 72 FARSDERKRHTKIH 85
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 31/75 (41%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 11 SCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 71 KFARSDERKRHTKIH 85
>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 = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 33/79 (41%)
Query: 89 HKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCL 148
HKC C + F K LK H+ H VK + C C S L H+ +H + KC
Sbjct: 9 HKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQ 68
Query: 149 YCFKVFVHKAHLDKHLILH 167
C + + L HL H
Sbjct: 69 ICPYASRNSSQLTVHLRSH 87
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 34/79 (43%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCK 65
+KC C K F + HM H +KC C A +L++HL H+ R F+C+
Sbjct: 9 HKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQ 68
Query: 66 SCGRRFESEELLIVHQVIH 84
C + L VH H
Sbjct: 69 ICPYASRNSSQLTVHLRSH 87
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 1/78 (1%)
Query: 63 RCKSCGRRFESEELLIVHQVIHER-KFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPK 121
+C+ CG+ F ++ L H H K +KC C+ + + L +HL H + F C
Sbjct: 10 KCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQI 69
Query: 122 CPKLFRHESHLQNHVIVH 139
CP R+ S L H+ H
Sbjct: 70 CPYASRNSSQLTVHLRSH 87
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 32/77 (41%)
Query: 119 CPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFC 178
C C K F + L+ H+ H + +KC C + L+KHL +H C C
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQIC 70
Query: 179 HLTFTTDNDLIRHMRSH 195
+ L H+RSH
Sbjct: 71 PYASRNSSQLTVHLRSH 87
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 33/83 (39%), Gaps = 1/83 (1%)
Query: 140 DESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYH 199
S HKC C K F K L H+ H + + C C + L +H+R H +
Sbjct: 4 GSSGPHKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSD-E 62
Query: 200 TKHTCDICGEKFINDLKLKAHIK 222
C IC N +L H++
Sbjct: 63 RPFKCQICPYASRNSSQLTVHLR 85
>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 = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 71 KFARSDERKRHTKI 84
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F L H+ +H + +C C + F HL H+ H +
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 63 FACDICGRKFARSDERKRHTKIH 85
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 35/77 (45%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRR 70
C + F +S +H+ H +C +C + + +L H+ TH + F C CGR+
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 71 FESEELLIVHQVIHERK 87
F + H IH R+
Sbjct: 72 FARSDERKRHTKIHLRQ 88
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF + L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 11 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 71 KFARSDERKRHTKIH 85
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 72 FARSDERKRHTKIH 85
>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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 69
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 70 KFARSDERKRHTKI 83
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F L H+ +H + +C C + F HL H+ H +
Sbjct: 2 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 61
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 62 FACDICGRKFARSDERKRHTKIH 84
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 35/77 (45%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRR 70
C + F +S +H+ H +C +C + + +L H+ TH + F C CGR+
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 70
Query: 71 FESEELLIVHQVIHERK 87
F + H IH R+
Sbjct: 71 FARSDERKRHTKIHLRQ 87
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF + L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 10 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 69
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 70 KFARSDERKRHTKIH 84
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 70
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 71 FARSDERKRHTKIH 84
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHK 146
K + C QC +SF +K +H+ H ++ + C C K F+ + HL H+ +H + ++
Sbjct: 9 KLYPC-QCGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYE 67
Query: 147 CLYCFKVFVHKAHLDKHL 164
C C K F+ + +H+
Sbjct: 68 CNICAKRFMWRDSFHRHV 85
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C K F HK+ D+H+ +H + C C F + L+ HM+ H + C+IC +
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGI-KPYECNICAK 73
Query: 210 KFI 212
+F+
Sbjct: 74 RFM 76
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHN 174
K++ C +C K F H+S H+ +H + C C K F K HL H+ +H + +
Sbjct: 9 KLYPC-QCGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYE 67
Query: 175 CDFCHLTFTTDNDLIRHMRS 194
C+ C F + RH+ S
Sbjct: 68 CNICAKRFMWRDSFHRHVTS 87
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 5 LYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRC 64
LY C C K F + D+HM H + C +C K + + +L H+ H + + C
Sbjct: 10 LYPCQ-CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYEC 68
Query: 65 KSCGRRF 71
C +RF
Sbjct: 69 NICAKRF 75
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209
C + F L +H+ +H + C C F+ + L H+R+H CDICG
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG-EKPFACDICGR 70
Query: 210 KFINDLKLKAHIKI 223
KF + K H KI
Sbjct: 71 KFARSDERKRHTKI 84
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 115 KVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEM 172
+ + CP C + F L H+ +H + +C C + F HL H+ H +
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
Query: 173 HNCDFCHLTFTTDNDLIRHMRSH 195
CD C F ++ RH + H
Sbjct: 63 FACDICGRKFARSDERKRHTKIH 85
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 34/76 (44%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRR 70
C + F +S +H+ H +C +C + + +L H+ TH + F C CGR+
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 71 FESEELLIVHQVIHER 86
F + H IH R
Sbjct: 72 FARSDERKRHTKIHLR 87
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 1/75 (1%)
Query: 66 SCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPK 124
SC RRF + L H IH +K +C C +F HL H+ H K F C C +
Sbjct: 11 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 125 LFRHESHLQNHVIVH 139
F + H +H
Sbjct: 71 KFARSDERKRHTKIH 85
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 94 CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKV 153
C+ F L +H+ H K F C C + F HL H+ H + C C +
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 154 FVHKAHLDKHLILH 167
F +H +H
Sbjct: 72 FARSDERKRHTKIH 85
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 3/75 (4%)
Query: 39 CTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH--ERKFHKCTQCEE 96
C + + L RH+ H ++ F+C+ C R F + L H H E+ F C C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPF-ACDICGR 70
Query: 97 SFKNKKHLKQHLLAH 111
F K+H H
Sbjct: 71 KFARSDERKRHTKIH 85
>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 = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 45/93 (48%), Gaps = 7/93 (7%)
Query: 137 IVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHE 196
++ D + C+ C + +V L +H +H + + C +C F L + HE
Sbjct: 15 LIVDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFP----LAEYRTKHE 70
Query: 197 EYHT---KHTCDICGEKFINDLKLKAHIKIIHN 226
+HT ++ C CG+ FIN + +HIK +H+
Sbjct: 71 IHHTGERRYQCLACGKSFINYQFMSSHIKSVHS 103
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 37/78 (47%)
Query: 3 KTLYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSF 62
+ Y C+ C + + TS +H H+ + C C K +P + +H + H R +
Sbjct: 20 RVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRY 79
Query: 63 RCKSCGRRFESEELLIVH 80
+C +CG+ F + + + H
Sbjct: 80 QCLACGKSFINYQFMSSH 97
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 31 NVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH--ERKF 88
V + C +C ++Y +L RH H+ + + C+ C + F E H++ H ER++
Sbjct: 20 RVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRY 79
Query: 89 HKCTQCEESFKNKKHLKQHL 108
+C C +SF N + + H+
Sbjct: 80 -QCLACGKSFINYQFMSSHI 98
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 38/83 (45%)
Query: 82 VIHERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDE 141
++ R ++ C C+ S+ L++H H K + C C K+F + H I H
Sbjct: 16 IVDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTG 75
Query: 142 SEVHKCLYCFKVFVHKAHLDKHL 164
++CL C K F++ + H+
Sbjct: 76 ERRYQCLACGKSFINYQFMSSHI 98
Score = 32.0 bits (71), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 33/76 (43%)
Query: 119 CPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFC 178
C C + + + L+ H +H + + C YC KVF + KH I H + C C
Sbjct: 25 CIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQCLAC 84
Query: 179 HLTFTTDNDLIRHMRS 194
+F + H++S
Sbjct: 85 GKSFINYQFMSSHIKS 100
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHL 53
Y C YC KVF + KH HH ++C C K++ + + + H+
Sbjct: 51 YPCRYCEKVFPLAEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSHI 98
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 30/58 (51%)
Query: 85 ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDES 142
ER+ +KC +C +SF + L +H H K + C +C K F SHL H VH S
Sbjct: 15 ERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVHTGS 72
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETS 170
+ + C +C K F H S L H H + +KC C K F+ ++HL H +H S
Sbjct: 17 RRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVHTGS 72
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 25/55 (45%)
Query: 141 ESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSH 195
E +KC C K F H + L KH H + + CD C F + LI H R H
Sbjct: 15 ERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVH 69
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH 84
+KC C K++ +L +H TH + ++C CG+ F LI H +H
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVH 69
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 173 HNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKI 223
+ CD C +F+ +DL +H R+H + CD CG+ FI L H ++
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTG-EKPYKCDECGKAFIQRSHLIGHHRV 68
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 24/55 (43%)
Query: 2 EKTLYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTH 56
E+ YKC C K F S+ KH H +KC C KA+ +L H H
Sbjct: 15 ERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVH 69
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 59 RRSFRCKSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVF 117
RR ++C CG+ F L H+ H K +KC +C ++F + HL+ H +V
Sbjct: 16 RRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQ----RSHLIGHHRVHTG 71
Query: 118 HCP 120
P
Sbjct: 72 SGP 74
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 47/116 (40%), Gaps = 7/116 (6%)
Query: 59 RRSFRC--KSCGRRFESEELLIVHQVIH-ERKFHKC--TQCEESFKNKKHLKQHLLAHEK 113
+R F C C +R+ L +H H K ++C CE F LK+H H
Sbjct: 4 KRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTG 63
Query: 114 VKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLY--CFKVFVHKAHLDKHLILH 167
VK F C C + F HL+ H H + C + C K F L +H +H
Sbjct: 64 VKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRHHNMH 119
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 6 YKCLY--CHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFR 63
Y+C + C + F +S +H H +C C + + +L H TH + F
Sbjct: 37 YQCDFKDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFS 96
Query: 64 CK--SCGRRFESEELLIVHQVIH 84
C+ SC ++F + L+ H +H
Sbjct: 97 CRWPSCQKKFARSDELVRHHNMH 119
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 32/81 (39%), Gaps = 5/81 (6%)
Query: 147 CLY--CFKVFVHKAHLDKHLILHETSEMHNCDF--CHLTFTTDNDLIRHMRSHEEYHTKH 202
C Y C K + +HL H H + + CDF C F+ + L RH R H
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGV-KPF 67
Query: 203 TCDICGEKFINDLKLKAHIKI 223
C C KF LK H +
Sbjct: 68 QCKTCQRKFSRSDHLKTHTRT 88
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 41/144 (28%), Positives = 58/144 (40%), Gaps = 19/144 (13%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKC--HLCTKAYPSEKNLDRHLLTHNVRRSFRCKS-- 66
C + K+ H+ H C C K + S +L RH LTH ++F C S
Sbjct: 20 CGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDG 79
Query: 67 CGRRFESEELLIVHQVIHERKFHK---CT------QCEESFKNKKHLKQHLLAHEKVKVF 117
C RF ++ + H +FH C C ++FK LK H +H + +
Sbjct: 80 CDLRFTTK----ANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPY 135
Query: 118 HCP--KCPKLFRHESHLQNHVIVH 139
CP C K F S L+ H VH
Sbjct: 136 ECPHEGCDKRFSLPSRLKRHEKVH 159
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/165 (26%), Positives = 65/165 (39%), Gaps = 11/165 (6%)
Query: 39 CTKAYPSEKNLDRHLLTHNVRRSFRCK--SCGRRFESEELLIVHQVIH--ERKFH-KCTQ 93
C AY L HL H + F CK C + F S L H + H E+ F
Sbjct: 20 CGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDG 79
Query: 94 CEESFKNKKHLKQHLLAHEKVK----VFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLY 149
C+ F K ++K+H +K V H C K F+ + L+ H H + ++C +
Sbjct: 80 CDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPH 139
Query: 150 --CFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHM 192
C K F + L +H +H D C T ++H+
Sbjct: 140 EGCDKRFSLPSRLKRHEKVHAGYPCKKDDSCSFVGKTWTLYLKHV 184
Score = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 45/115 (39%), Gaps = 6/115 (5%)
Query: 150 CFKVFVHKAHLDKHLILHETSEMHNC--DFCHLTFTTDNDLIRHMRSHEEYHTKHTCD-- 205
C + L HL H + C + C FT+ + L RH +H TCD
Sbjct: 20 CGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG-EKNFTCDSD 78
Query: 206 ICGEKFINDLKLKAHIKIIHNLFTCIHCGDTLNNAKDYASH-LLIIHNIESSQQV 259
C +F +K H HN+ C++ N K + H L +H +QQ+
Sbjct: 79 GCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQL 133
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 45/165 (27%), Positives = 64/165 (38%), Gaps = 24/165 (14%)
Query: 82 VIHERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPK--CPKLFRHESHLQNHVIVH 139
V+++R C ++ L+ HL H K F C + C K F HL H + H
Sbjct: 8 VVYKRYICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTH 67
Query: 140 DESEVHKC--LYCFKVFVHKAHLDKHLILHETSEMHN-------CDF--CHLTFTTDNDL 188
+ C C F KA++ KH + HN C F C F N L
Sbjct: 68 TGEKNFTCDSDGCDLRFTTKANMKKHF-----NRFHNIKICVYVCHFENCGKAFKKHNQL 122
Query: 189 IRHMRSHEE---YHTKHTCDICGEKFINDLKLKAHIKIIHNLFTC 230
H SH + Y H + C ++F +LK H K +H + C
Sbjct: 123 KVHQFSHTQQLPYECPH--EGCDKRFSLPSRLKRHEK-VHAGYPC 164
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 141 ESEVHKCLY--CFKVFVHKAHLDKHLILHETSEMHNCDF--CHLTFTTDNDLIRHMRSHE 196
+ H C Y C K + +HL HL H + ++CD+ C F ++L RH R H
Sbjct: 2 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHT 61
Query: 197 EYHTKHTCDICGEKFINDLKLKAHIK 222
H C C F L H+K
Sbjct: 62 G-HRPFQCQKCDRAFSRSDHLALHMK 86
Score = 35.0 bits (79), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 30/76 (39%), Gaps = 2/76 (2%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCG 68
C K + KS+ H+ H + C C + L RH H R F+C+ C
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 72
Query: 69 RRFESEELLIVHQVIH 84
R F + L +H H
Sbjct: 73 RAFSRSDHLALHMKRH 88
Score = 31.6 bits (70), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 2/76 (2%)
Query: 122 CPKLFRHESHLQNHVIVHDESEVHKCLY--CFKVFVHKAHLDKHLILHETSEMHNCDFCH 179
C K + SHL+ H+ H + + C + C F L +H H C C
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 72
Query: 180 LTFTTDNDLIRHMRSH 195
F+ + L HM+ H
Sbjct: 73 RAFSRSDHLALHMKRH 88
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 29/77 (37%), Gaps = 3/77 (3%)
Query: 66 SCGRRFESEELLIVHQVIH--ERKFH-KCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKC 122
CG+ + L H H E+ +H C F L +H H + F C KC
Sbjct: 12 GCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKC 71
Query: 123 PKLFRHESHLQNHVIVH 139
+ F HL H+ H
Sbjct: 72 DRAFSRSDHLALHMKRH 88
>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 = 0.004, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 52/119 (43%), Gaps = 14/119 (11%)
Query: 65 KSCGRRFESEELLIVHQVI----------HERKFHKCTQCEESFKNKKHLKQHLLAHEKV 114
KSC R F + L+ H + H + +C + +SFK K L H+ H
Sbjct: 29 KSCDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRVHTGE 88
Query: 115 KVFHC--PKCPKLFRHESHLQNHVIVHDESEVHKCLY--CFKVFVHKAHLDKHLILHET 169
K F C P C K+F +L+ H H + KC + C + F + + KH+ +H +
Sbjct: 89 KPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTS 147
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 36 CHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVH-QVIH 84
C +CT+A+ +++L RH +H + + C C R F +LLI H Q IH
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 147 CLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHM 192
C C + F + HL +H H + + C C+ FT + LIRH
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHA 50
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 91 CTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHV 136
C C +F ++HLK+H +H K + C C + F L H
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHA 50
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHD 140
K +KC +C+ SF+ K +L H H K + C C F ++L+ H +H
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHS 69
Score = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHE 168
K + C +C FR++ +L +H VH + ++C C F A+L H +H
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHS 69
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%)
Query: 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHE 85
+KC C ++ + NL H H + +RC CG +F L H IH
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHS 69
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 7/54 (12%)
Query: 173 HNCDFCHLTFTTDNDLIRHMRSHEEYHTK---HTCDICGEKFINDLKLKAHIKI 223
+ CD C +F +L SH+ HT + C+ICG +F LK H +I
Sbjct: 18 YKCDRCQASFRYKGNLA----SHKTVHTGEKPYRCNICGAQFNRPANLKTHTRI 67
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 143 EVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHE 196
+ +KC C F +K +L H +H + + C+ C F +L H R H
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHS 69
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 35.8 bits (81), Expect = 0.036, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 85 ERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVH 139
ER F C C +++++ L +H AH + CP+C K FR +S + H+ VH
Sbjct: 2 ERPFF-CNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVH 55
Score = 32.0 bits (71), Expect = 0.51, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 175 CDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHN 226
C+FC T+ + L RH R+H Y + +C CG+ F + ++ H+K+ N
Sbjct: 7 CNFCGKTYRDASGLSRHRRAHLGYRPR-SCPECGKCFRDQSEVNRHLKVHQN 57
Score = 31.6 bits (70), Expect = 0.81, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 22/52 (42%)
Query: 36 CHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHERK 87
C+ C K Y L RH H R C CG+ F + + H +H+ K
Sbjct: 7 CNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVHQNK 58
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 24/52 (46%)
Query: 117 FHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHE 168
F C C K +R S L H H C C K F ++ +++HL +H+
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVHQ 56
Score = 28.5 bits (62), Expect = 6.7, Method: Composition-based stats.
Identities = 12/49 (24%), Positives = 22/49 (44%)
Query: 8 CLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTH 56
C +C K ++ ++ +H H C C K + + ++RHL H
Sbjct: 7 CNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVH 55
>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 = 35.0 bits (79), Expect = 0.061, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 142 SEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHM 192
+E H C C + F K ++HL L +++ C +C TF + L RH+
Sbjct: 26 AECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHI 76
Score = 35.0 bits (79), Expect = 0.061, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 22/48 (45%)
Query: 89 HKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHV 136
H C C ESF +K ++HL +VF C CP F L H+
Sbjct: 29 HLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHI 76
Score = 32.0 bits (71), Expect = 0.60, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 202 HTCDICGEKFINDLKLKAHIKIIH--NLFTCIHCGDTLNNAKDYASHLLIIHNIES 255
H C +CGE F + + H++++H +F C +C T ++ H+ H E+
Sbjct: 29 HLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCHPSEN 84
Score = 29.6 bits (65), Expect = 3.1, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVH 80
H C +C +++ S+ +RHL + + F CK C F S L H
Sbjct: 29 HLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRH 75
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 61/147 (41%), Gaps = 14/147 (9%)
Query: 94 CEESFKNKKHL-----KQHLLAHEKVKVFHCPKCPK---LFRHESHLQNHVIVHDESEVH 145
C + F +++ L +H+ K V H C + F+ + L H+ H + H
Sbjct: 9 CSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEKPH 68
Query: 146 KCLY--CFKVFVHKAHLDKHLILHETSEMHNCD--FCHLTFTTDNDLIRHMRSHEEYHTK 201
KC + C K + +L HL H + + C+ C F+ +D +H
Sbjct: 69 KCTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKP 128
Query: 202 HTCDI--CGEKFINDLKLKAHIKIIHN 226
+ C + C +++ + L+ H+K +H
Sbjct: 129 YVCKLPGCTKRYTDPSSLRKHVKTVHG 155
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 47/128 (36%), Gaps = 28/128 (21%)
Query: 13 KVFKKSTSFDKHMEHHNRNVLHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRC--KSCG 68
+ FK HM H HKC C K+Y +NL HL +H + + C + C
Sbjct: 47 RPFKAQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCS 106
Query: 69 RRFESEELLIVHQVIHERKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRH 128
+ F + HQ N+ H ++EK V P C K +
Sbjct: 107 KAFSNASDRAKHQ------------------NRTH------SNEKPYVCKLPGCTKRYTD 142
Query: 129 ESHLQNHV 136
S L+ HV
Sbjct: 143 PSSLRKHV 150
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 34.7 bits (78), Expect = 0.086, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 25/53 (47%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVH 139
K + C +C ++F L QH H K + C +C K F S L NH +H
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIH 65
Score = 34.7 bits (78), Expect = 0.093, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 24/51 (47%)
Query: 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH 84
+ C C KA+ L +H H + ++C CG+ F LI HQ IH
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIH 65
Score = 33.5 bits (75), Expect = 0.18, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 26/55 (47%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHET 169
K + C +C K F S L H VH + +KCL C K F + L H +H +
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTS 67
Score = 31.6 bits (70), Expect = 0.79, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 22/51 (43%)
Query: 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTH 56
Y C+ C K F +S+ +H H +KC C KA+ L H H
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIH 65
Score = 29.6 bits (65), Expect = 2.9, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 25/51 (49%)
Query: 145 HKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSH 195
+ C+ C K F + L +H +H + + C C F+ ++ LI H R H
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIH 65
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 34.7 bits (78), Expect = 0.090, Method: Composition-based stats.
Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 142 SEVHKCLY--CFKVFVHKAHLDKHLILHETSEMHNCDF--CHLTFTTDNDLIRHMRSHEE 197
+ H C Y C K + +HL HL H + ++CD+ C F ++L RH R H
Sbjct: 4 TATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG 63
Query: 198 YHTKHTCDICGEKFINDLKLKAHIK 222
H C C F L H+K
Sbjct: 64 -HRPFQCQKCDRAFSRSDHLALHMK 87
Score = 33.9 bits (76), Expect = 0.14, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 30/76 (39%), Gaps = 2/76 (2%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCG 68
C K + KS+ H+ H + C C + L RH H R F+C+ C
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 73
Query: 69 RRFESEELLIVHQVIH 84
R F + L +H H
Sbjct: 74 RAFSRSDHLALHMKRH 89
Score = 29.6 bits (65), Expect = 3.1, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 2/76 (2%)
Query: 122 CPKLFRHESHLQNHVIVHDESEVHKCLY--CFKVFVHKAHLDKHLILHETSEMHNCDFCH 179
C K + SHL+ H+ H + + C + C F L +H H C C
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 73
Query: 180 LTFTTDNDLIRHMRSH 195
F+ + L HM+ H
Sbjct: 74 RAFSRSDHLALHMKRH 89
Score = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 27/113 (23%), Positives = 35/113 (30%), Gaps = 27/113 (23%)
Query: 29 NRNVLHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHER 86
+R H C C K Y +L HL TH + + C G
Sbjct: 2 SRTATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDG------------------ 43
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVH 139
C F L +H H + F C KC + F HL H+ H
Sbjct: 44 -------CGWKFARSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKRH 89
>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 = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 174 NCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHNL 227
C C F+ + L H+R+H CDICG KF + K H I H L
Sbjct: 5 QCRICMRNFSRSDHLTTHIRTHT-GEKPFACDICGRKFARSDERKRHRDIQHIL 57
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 35 KCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRF 71
+C +C + + +L H+ TH + F C CGR+F
Sbjct: 5 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKF 41
Score = 28.5 bits (62), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 146 KCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRH 191
+C C + F HL H+ H + CD C F ++ RH
Sbjct: 5 QCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50
>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 = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 23/54 (42%)
Query: 142 SEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSH 195
S +C YC K F +L+ HL H + + C+FC L H+ H
Sbjct: 2 SSSRECSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 21/49 (42%)
Query: 119 CPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILH 167
C C K FR +L H+ H + +KC +C K L HL H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 7 KCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTH 56
+C YC K F+ + + H+ H +KC C A + +L HL H
Sbjct: 6 ECSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 64 CKSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAHEK 113
C CG+ F S L +H H K +KC CE + K L+ HL H K
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
>pdb|2EMW|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
301- 331) Of Human Zinc Finger Protein 268
Length = 44
Score = 31.6 bits (70), Expect = 0.65, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH 84
+ + C CG+ F S+ LIVHQ IH
Sbjct: 9 KPYGCNECGKDFSSKSYLIVHQRIH 33
>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 = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 160 LDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRS 194
L KH+ H ++C +C+ +F T +L +HM+S
Sbjct: 17 LKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKS 51
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 64 CKSCGRRFESEELLIVHQVIHE--RKFHKCTQCEESFKNKKHLKQHL 108
C+ CG R + +L H H R +H CT C SFK K +L +H+
Sbjct: 4 CEECGIRXKKPSMLKKHIRTHTDVRPYH-CTYCNFSFKTKGNLTKHM 49
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 91 CTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHV 136
C +C K LK+H+ H V+ +HC C F+ + +L H+
Sbjct: 4 CEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHM 49
>pdb|1RIM|A Chain A, E6-Binding Zinc Finger (E6apc2)
Length = 33
Score = 31.2 bits (69), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 117 FHCPKCPKLFRHESHLQNHVIVHD 140
F CP+CPK F HL H+ +H+
Sbjct: 3 FACPECPKRFMRSDHLSKHITLHE 26
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 112 EKVKVFHCP--KCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILH 167
K++ + CP C + F L H+ +H + +C C + F HL H+ H
Sbjct: 15 PKMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 2/64 (3%)
Query: 78 IVHQVIHERKFHKCT--QCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNH 135
+++ V+ + + + C C+ F L +H+ H K F C C + F HL H
Sbjct: 9 LLNYVVPKMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 68
Query: 136 VIVH 139
+ H
Sbjct: 69 IRTH 72
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 60 RSFRC--KSCGRRFESEELLIVHQVIH-ERKFHKCTQCEESFKNKKHLKQHLLAH 111
R + C +SC RRF + L H IH +K +C C +F HL H+ H
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 39 CTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIH 84
C + + L RH+ H ++ F+C+ C R F + L H H
Sbjct: 27 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 168 ETSEMHNCDFCHLTFTTDNDLIRH-MRSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHN 226
E + C C +T ++ RH + SH+ + C C ++F + AH+KIIH
Sbjct: 6 EGEHTYRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVKIIHK 65
Query: 227 L 227
+
Sbjct: 66 I 66
>pdb|1RIK|A Chain A, E6-Binding Zinc Finger (E6apc1)
Length = 29
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 117 FHCPKCPKLFRHESHLQNHVIVHD 140
F CP+CPK F HL H+++H+
Sbjct: 3 FACPECPKRFMRSDHLTLHILLHE 26
>pdb|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human Zinc
Finger Protein 512
Length = 96
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 203 TCDICGEKFINDLKLKAHIKIIHNLFTCIHCGDTLNNAKDYASHLLIIHN 252
TC G K I LK K +FTC HCG L + H++ HN
Sbjct: 39 TCQAVGRKTIEGLK-KHMENCKQEMFTCHHCGKQLRSLAGMKYHVMANHN 87
>pdb|2ELV|A Chain A, Solution Structure Of The 6th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 31 NVLHKCHLCTKAYPSEKNLDRHLLTHN 57
+L+ CH+C + + +E + DRH+L H
Sbjct: 7 GLLYDCHICERKFKNELDRDRHMLVHG 33
>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 = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVHD 140
K F CP+CPK F HL H+ H
Sbjct: 1 KKFACPECPKRFMRSDHLSKHIKTHQ 26
>pdb|2EMB|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
342- 372) Of Human Zinc Finger Protein 473
Length = 44
Score = 29.6 bits (65), Expect = 2.5, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 84 HERKFHKCTQCEESFKNKKHLKQHLLAH 111
H RK ++C++C+ +F +KHL QH H
Sbjct: 8 HTRKRYECSKCQATFNLRKHLIQHQKTH 35
>pdb|2EOK|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
441- 469) Of Human Zinc Finger Protein 268
Length = 42
Score = 29.3 bits (64), Expect = 3.4, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH 84
+ + C CG+ F + LIVHQ IH
Sbjct: 9 KPYVCSDCGKAFTFKSQLIVHQGIH 33
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 11 CHKVFKKSTSFDKHMEHHNRNVLHKC--HLCTKAYPSEKNLDRHLLTHNVRRSFRCKS-- 66
C + K+ H+ H C C K + S +L RH LTH ++F C S
Sbjct: 11 CGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDG 70
Query: 67 CGRRFESEELLIVH 80
C RF ++ + H
Sbjct: 71 CDLRFTTKANMKKH 84
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 4/75 (5%)
Query: 122 CPKLFRHESHLQNHVIVHDESEVHKCL--YCFKVFVHKAHLDKHLILHETSEMHNC--DF 177
C + LQ H+ H + C C K F HL +H + H + C D
Sbjct: 11 CGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDG 70
Query: 178 CHLTFTTDNDLIRHM 192
C L FTT ++ +H
Sbjct: 71 CDLRFTTKANMKKHF 85
>pdb|2EN4|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
284- 316) Of Human Zinc Finger Protein 347
Length = 46
Score = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH 84
+ ++C CG+ F + L HQVIH
Sbjct: 11 KPYKCYECGKAFRTRSNLTTHQVIH 35
>pdb|2EQ1|A Chain A, Solution Structure Of The 9th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH 84
+ ++C CG+ F + L HQVIH
Sbjct: 11 KPYKCNECGKAFRAHSNLTTHQVIH 35
>pdb|2LVH|A Chain A, Solution Structure Of The Zinc Finger Afv1p06 Protein From
The Hyperthermophilic Archaeal Virus Afv1
Length = 59
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKV 114
+ ++C +C +F+ KK L +HL+ EKV
Sbjct: 9 RVYQCLRCGLTFRTKKQLIRHLVNTEKV 36
>pdb|2ELX|A Chain A, Solution Structure Of The 8th C2h2 Zinc Finger Of Mouse
Zinc Finger Protein 406
Length = 35
Score = 28.9 bits (63), Expect = 5.1, Method: Composition-based stats.
Identities = 8/24 (33%), Positives = 19/24 (79%)
Query: 202 HTCDICGEKFINDLKLKAHIKIIH 225
+ C +C +KF++ ++L++HI+ +H
Sbjct: 8 YVCALCLKKFVSSIRLRSHIREVH 31
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAH--EKVKVFHCPKCPKLFRHESHLQNHV 136
K ++C C F +K H+L E V FHCP C + +S L H+
Sbjct: 14 KPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHL 65
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 28.5 bits (62), Expect = 6.2, Method: Composition-based stats.
Identities = 14/58 (24%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 55 THNVRRSFRCKSCGRRFESEELLIVH-QVIHERKF----HKCTQCEESFKNKKHLKQH 107
TH + + C C + F ++LL +H + H+ F C++C ++F + + +H
Sbjct: 9 THTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARH 66
Score = 28.1 bits (61), Expect = 7.5, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 87 KFHKCTQCEESFKNKKHLKQHLLAHEKVK----VFHCPKCPKLFRHESHLQNH 135
K + C+ C+++F+ K+ L H + F C KC K F + + H
Sbjct: 14 KPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARH 66
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 28.1 bits (61), Expect = 8.5, Method: Composition-based stats.
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH 84
+ ++CK CG+ F L VH+ +H
Sbjct: 9 KPYQCKECGKSFSQRGSLAVHERLH 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 = 28.1 bits (61), Expect = 8.7, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 39 CTKAYPSEKNLDRHLLTHNVRRSFRC--KSCGRRFESEELLIVHQVIH 84
C K Y +L H TH + F C K C RRF + L H+ H
Sbjct: 25 CGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 120 PKCPKLFRHESHLQNHVI---VHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCD 176
P C ++F + +L +H +H +S C K F K HL +H+ LH + + C+
Sbjct: 13 PGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSDTRDYICE 72
Query: 177 F 177
F
Sbjct: 73 F 73
>pdb|2ENA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
311- 343) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.1 bits (61), Expect = 8.9, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 115 KVFHCPKCPKLFRHESHLQNHVIVH 139
K F C C K FR S L +H ++H
Sbjct: 11 KPFRCDTCDKSFRQRSALNSHRMIH 35
>pdb|2YTP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
687- 719) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.1 bits (61), Expect = 9.1, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 60 RSFRCKSCGRRFESEELLIVHQVIH 84
R + C CG+ F + LI+HQ IH
Sbjct: 11 RHYECSECGKAFARKSTLIMHQRIH 35
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 0.134 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,232,618
Number of Sequences: 62578
Number of extensions: 456400
Number of successful extensions: 2123
Number of sequences better than 100.0: 101
Number of HSP's better than 100.0 without gapping: 86
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1500
Number of HSP's gapped (non-prelim): 502
length of query: 367
length of database: 14,973,337
effective HSP length: 100
effective length of query: 267
effective length of database: 8,715,537
effective search space: 2327048379
effective search space used: 2327048379
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)