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= psy13515
(526 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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 58/199 (29%), Positives = 88/199 (44%), Gaps = 27/199 (13%)
Query: 22 KPKQVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG- 80
+P + + C CGK F R L EH +TH + Y C C + +S K L H++ H G
Sbjct: 16 EPGEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGE 75
Query: 81 KQHECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGV 140
K ++C +C + F L H R+H + + C +C + + LR H TH +
Sbjct: 76 KPYKCPECGKSFSQRANLRAH-QRTHTGEKPYACPECGKSFSQLAHLRAHQR-THTGEKP 133
Query: 141 RFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGKRFCDICSQ 200
+ C CGKSF RE +L H R H + YK C C +
Sbjct: 134 -YKCPECGKSFSREDNLHTHQR-------THTGEKPYK----------------CPECGK 169
Query: 201 DYSTKYYLKLHKQVHEGKQ 219
+S + L +H++ H GK+
Sbjct: 170 SFSRRDALNVHQRTHTGKK 188
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/164 (29%), Positives = 73/164 (44%), Gaps = 9/164 (5%)
Query: 142 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLI----AHVHGKRF-CD 196
++C CGKSF R L +H R + C +C K +L H K + C
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 197 ICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCS 255
C + +S + L+ H++ H G K + C EC + F L H R+H +KC +C
Sbjct: 82 ECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAH-QRTHTGEKPYKCPECG 140
Query: 256 RKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLR 299
+ + + +L H + K + C CGKSF R +L H R
Sbjct: 141 KSFSREDNLHTHQRTHTGEK--PYKCPECGKSFSRRDALNVHQR 182
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 55/139 (39%), Gaps = 29/139 (20%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG------- 463
Y+C C K F KKDL RH + Y C C + F +ANL H +H G
Sbjct: 50 YKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACP 109
Query: 464 ----------------------KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNK 501
K Y+C C K F+ + L++H+R Y C C K
Sbjct: 110 ECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGK 169
Query: 502 TITSKNSLRDHIHLFHGRK 520
+ + +++L H G+K
Sbjct: 170 SFSRRDALNVHQRTHTGKK 188
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 35/115 (30%), Positives = 54/115 (46%), Gaps = 7/115 (6%)
Query: 218 KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGV 277
K + C EC + F S L +H R+H +KC +C + + K L RH + K
Sbjct: 20 KPYACPECGKSFSRSDHLAEH-QRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEK-- 76
Query: 278 RFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGYHRL 332
+ C CGKSF + +LR H R + C +C K+F + +AH+ + R
Sbjct: 77 PYKCPECGKSFSQRANLRAHQRTHTGEKPYACPEC-GKSF---SQLAHLRAHQRT 127
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 38/83 (45%), Gaps = 1/83 (1%)
Query: 439 YPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCF 497
Y C C + F +L H +H G K Y+C C K F+ K+ L H+R Y C
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 498 MCNKTITSKNSLRDHIHLFHGRK 520
C K+ + + +LR H G K
Sbjct: 82 ECGKSFSQRANLRAHQRTHTGEK 104
Score = 37.4 bits (85), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 46/216 (21%), Positives = 74/216 (34%), Gaps = 50/216 (23%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLH 308
+ C +C + + L H + K + C CGKSF ++ L +H R +
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEK--PYKCPECGKSFSDKKDLTRHQRTHTGEKPYK 79
Query: 309 CDKCRYKTFLKSNLIAHVHGYHRLAITLTDITMNHSGIKLECSPDLKYVKNEIREDLQTI 368
C +C ++NL AH H+G K P+ ++
Sbjct: 80 CPECGKSFSQRANLRAHQ--------------RTHTGEKPYACPECG----------KSF 115
Query: 369 IKIDETKFHQESLNVSTKQSCQFLLEHLSLKNNITGTQQCEVYQCYHCLKIFKRKKDLPR 428
++ + HQ + H K Y+C C K F R+ +L
Sbjct: 116 SQLAHLRAHQRT--------------HTGEK----------PYKCPECGKSFSREDNLHT 151
Query: 429 HIMSVHMRIKYPCTICPREFQNKANLNHHLASHAGK 464
H + Y C C + F + LN H +H GK
Sbjct: 152 HQRTHTGEKPYKCPECGKSFSRRDALNVHQRTHTGK 187
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 28/74 (37%)
Query: 447 EFQNKANLNHHLASHAGKTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNKTITSK 506
EF + +++ K Y C C K F+ L H+R Y C C K+ + K
Sbjct: 3 EFGSSSSVAQAALEPGEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDK 62
Query: 507 NSLRDHIHLFHGRK 520
L H G K
Sbjct: 63 KDLTRHQRTHTGEK 76
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 58/107 (54%), Gaps = 5/107 (4%)
Query: 58 CDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDHTMRS--HKTRELFKC 114
C C + + +KYYLK+H + H G K EC KC + + + L +H R+ +++ ++F C
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 115 HQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKHL 161
C + + LR H+ +H + + + C C + F +++ L+ H+
Sbjct: 70 SVCQETFRRRMELRLHM-VSHTGE-MPYKCSSCSQQFMQKKDLQSHM 114
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 57/107 (53%), Gaps = 5/107 (4%)
Query: 195 CDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRS--HKTRVLFKC 251
C C + + +KYYLK+H + H G K EC +C + + + L +H R+ +++ +F C
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 252 HQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHL 298
C + + LR H+ +H + + + C C + F +++ L+ H+
Sbjct: 70 SVCQETFRRRMELRLHM-VSHTGE-MPYKCSSCSQQFMQKKDLQSHM 114
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 6/86 (6%)
Query: 411 YQCYHCLKIFKRKKDL----PRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAGK-T 465
++C C K + RK++L R+ M+ ++ + C++C F+ + L H+ SH G+
Sbjct: 36 FECPKCGKCYFRKENLLEHEARNCMNRSEQV-FTCSVCQETFRRRMELRLHMVSHTGEMP 94
Query: 466 YECENCSKIFNSKRKLYSHKRKDHMG 491
Y+C +CS+ F K+ L SH K H G
Sbjct: 95 YKCSSCSQQFMQKKDLQSHMIKLHSG 120
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 46/109 (42%), Gaps = 9/109 (8%)
Query: 144 CHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGKRF--------C 195
C C K F + L+ H R+ + C KC F K NL+ H C
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 196 DICSQDYSTKYYLKLHKQVHEGKQ-HECEECSRLFPSSKMLYDHTMRSH 243
+C + + + L+LH H G+ ++C CS+ F K L H ++ H
Sbjct: 70 SVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLH 118
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 392 LLEHLSLKNNITGTQQCEVYQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNK 451
LLEH +N + ++Q V+ C C + F+R+ +L H++S + Y C+ C ++F K
Sbjct: 51 LLEH-EARNCMNRSEQ--VFTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQK 107
Query: 452 ANLNHHLAS-HAGKT 465
+L H+ H+G +
Sbjct: 108 KDLQSHMIKLHSGPS 122
Score = 35.0 bits (79), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 4/83 (4%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVR---YTCDICSQDYSTKYYLKLHKQVHEGKQ-H 83
F C CGK + R L EH + + +TC +C + + + L+LH H G+ +
Sbjct: 36 FECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVSHTGEMPY 95
Query: 84 ECEKCPRLFPSSKMLYDHTMRSH 106
+C C + F K L H ++ H
Sbjct: 96 KCSSCSQQFMQKKDLQSHMIKLH 118
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 21 DKPKQVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHK-QVHE 79
++ +QV F C C + F R L+ H +H ++ Y C CSQ + K L+ H ++H
Sbjct: 61 NRSEQV-FTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLHS 119
Query: 80 G 80
G
Sbjct: 120 G 120
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 40/82 (48%), Gaps = 2/82 (2%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECE 469
+ C C K FKR L H++ YPC C + F K+++ H H G K ++C+
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQ 61
Query: 470 NCSKIFNSKRKLYSHKRKDHMG 491
C K F+ L +H RK H G
Sbjct: 62 VCGKAFSQSSNLITHSRK-HTG 82
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Query: 27 EFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHEC 85
F C CGK F R L H H Y C C + + K +K H +H G K H+C
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKC 60
Query: 86 EKCPRLFPSSKMLYDHTMR 104
+ C + F S L H+ +
Sbjct: 61 QVCGKAFSQSSNLITHSRK 79
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 41/101 (40%), Gaps = 24/101 (23%)
Query: 142 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGKRFCDICSQD 201
F C +CGKSF R +L HL +H D Y C C +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLL-------IHSDTRPYP----------------CQYCGKR 38
Query: 202 YSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMR 241
+ K +K H +H G K H+C+ C + F S L H+ +
Sbjct: 39 FHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSRK 79
Score = 36.2 bits (82), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG 80
+PC YCGK F + +K+HT H + + C +C + +S L H + H G
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSRKHTG 82
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 221 ECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFS 280
+C+ C + F S L H + TR + C C +++ K +++H + + K +
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIHSDTRP-YPCQYCGKRFHQKSDMKKHTFIHTGEKPHK-- 59
Query: 281 CHLCGKSFHREQSLRKHLRE 300
C +CGK+F + +L H R+
Sbjct: 60 CQVCGKAFSQSSNLITHSRK 79
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 5/81 (6%)
Query: 84 ECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVR-F 142
+C+ C + F S L H + TR + C C +++ K +++H + I+ G +
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIHSDTRP-YPCQYCGKRFHQKSDMKKHTF---IHTGEKPH 58
Query: 143 SCHLCGKSFHREQSLRKHLRE 163
C +CGK+F + +L H R+
Sbjct: 59 KCQVCGKAFSQSSNLITHSRK 79
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 4/78 (5%)
Query: 112 FKCHQCSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQL 170
F C C + + +L H+ I+ R + C CGK FH++ ++KH +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLL---IHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPH 58
Query: 171 HCDKCRYKTFLKSNLIAH 188
C C SNLI H
Sbjct: 59 KCQVCGKAFSQSSNLITH 76
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 4/78 (5%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQL 307
F C C + + +L H+ I+ R + C CGK FH++ ++KH +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLL---IHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPH 58
Query: 308 HCDKCRYKTFLKSNLIAH 325
C C SNLI H
Sbjct: 59 KCQVCGKAFSQSSNLITH 76
>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-05, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 44/93 (47%), Gaps = 3/93 (3%)
Query: 404 GTQQCEVYQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASH-- 461
G+ C C KIF+ L RH +S Y C +C F+ K +++H+ SH
Sbjct: 1 GSSGSSGVACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDG 60
Query: 462 -AGKTYECENCSKIFNSKRKLYSHKRKDHMGLT 493
GK Y C++C K F+ L H ++ H G +
Sbjct: 61 SVGKPYICQSCGKGFSRPDHLNGHIKQVHSGPS 93
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Query: 441 CTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRK--DHMGLTYSCF 497
C IC + F++ +LN H SH+G K Y C C F K ++ H R +G Y C
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 498 MCNKTITSKNSLRDHIHLFH 517
C K + + L HI H
Sbjct: 70 SCGKGFSRPDHLNGHIKQVH 89
Score = 36.2 bits (82), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 221 ECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFS 280
CE C ++F L H + SH + C C ++ K + H+ ++ + G +
Sbjct: 9 ACEICGKIFRDVYHLNRHKL-SHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYI 67
Query: 281 CHLCGKSFHREQSLRKHLRE 300
C CGK F R L H+++
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQ 87
Score = 36.2 bits (82), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 3/80 (3%)
Query: 30 CVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHE---GKQHECE 86
C CGKIF + L H +H + Y+C +C + K + H + H+ GK + C+
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQ 69
Query: 87 KCPRLFPSSKMLYDHTMRSH 106
C + F L H + H
Sbjct: 70 SCGKGFSRPDHLNGHIKQVH 89
Score = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 84 ECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFS 143
CE C ++F L H + SH + + C C ++ K + H+ + + G +
Sbjct: 9 ACEICGKIFRDVYHLNRHKL-SHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYI 67
Query: 144 CHLCGKSFHREQSLRKHLRE 163
C CGK F R L H+++
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQ 87
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 27 EFPCVYCGKIFPRLGLLKEHTKTHHLKVR--YTCDICSQDYSTKYYLKLH-KQVHEG 80
+ C CG F R + H ++H V Y C C + +S +L H KQVH G
Sbjct: 35 PYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 8/84 (9%)
Query: 142 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVH------GKRF- 194
+C +CGK F L +H + C C + K + HV GK +
Sbjct: 8 VACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYI 67
Query: 195 CDICSQDYSTKYYLKLH-KQVHEG 217
C C + +S +L H KQVH G
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQVHSG 91
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 34/79 (43%), Gaps = 1/79 (1%)
Query: 435 MRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMGLT 493
M Y C C + F +NL H +H G K Y+C C K F+ L H+R
Sbjct: 1 MEKPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKP 60
Query: 494 YSCFMCNKTITSKNSLRDH 512
Y C C K+ + + L H
Sbjct: 61 YKCPECGKSFSRSDHLSRH 79
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 218 KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGV 277
K ++C EC + F S L H R+H +KC +C + + L++H + K
Sbjct: 3 KPYKCPECGKSFSQSSNLQKH-QRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKP- 60
Query: 278 RFSCHLCGKSFHREQSLRKHLREEENQ 304
+ C CGKSF R L +H R +N+
Sbjct: 61 -YKCPECGKSFSRSDHLSRHQRTHQNK 86
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECE 86
+ C CGK F + L++H +TH + Y C C + +S L+ H++ H G K ++C
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCP 64
Query: 87 KCPRLFPSSKMLYDHTMRSHKTR 109
+C + F S L H R+H+ +
Sbjct: 65 ECGKSFSRSDHLSRH-QRTHQNK 86
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 81 KQHECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGV 140
K ++C +C + F S L H R+H + +KC +C + + L++H TH +
Sbjct: 3 KPYKCPECGKSFSQSSNLQKH-QRTHTGEKPYKCPECGKSFSQSSDLQKH-QRTHTGEKP 60
Query: 141 RFSCHLCGKSFHREQSLRKHLREEENQ 167
+ C CGKSF R L +H R +N+
Sbjct: 61 -YKCPECGKSFSRSDHLSRHQRTHQNK 86
Score = 36.6 bits (83), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEGKQ 82
+ C CGK F + L++H +TH + Y C C + +S +L H++ H+ K+
Sbjct: 33 YKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRTHQNKK 87
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 42/84 (50%), Gaps = 7/84 (8%)
Query: 142 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLI-----AHVHGKRF-C 195
+ C CGKSF + +L+KH R + C +C K+F +S+ + H K + C
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPEC-GKSFSQSSDLQKHQRTHTGEKPYKC 63
Query: 196 DICSQDYSTKYYLKLHKQVHEGKQ 219
C + +S +L H++ H+ K+
Sbjct: 64 PECGKSFSRSDHLSRHQRTHQNKK 87
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLH 308
+KC +C + + +L++H + K + C CGKSF + L+KH R +
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKP--YKCPECGKSFSQSSDLQKHQRTHTGEKPYK 62
Query: 309 CDKCRYKTFLKSNLIA 324
C +C K+F +S+ ++
Sbjct: 63 CPEC-GKSFSRSDHLS 77
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 24/57 (42%)
Query: 464 KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNKTITSKNSLRDHIHLFHGRK 520
K Y+C C K F+ L H+R Y C C K+ + + L+ H G K
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEK 59
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 279 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAH 325
+ C CGKSF + +L+KH R + C +C S+L H
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKH 51
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 27 EFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH-EGKQHEC 85
EF C +CG+ F + L H +TH + YTCDIC + + + +L+ H+ +H + K +C
Sbjct: 17 EFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKC 76
Query: 86 EKCPRLFPSSKMLYDH 101
++C + F S+ L H
Sbjct: 77 QECGKGFCQSRTLAVH 92
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 53 KVRYTCDICSQDYSTKYYLKLHKQVH-EGKQHECEKCPRLFPSSKMLYDHTMRSHKTREL 111
K + C C + ++ Y L +H++ H + + + C+ C + F L DH H +
Sbjct: 15 KKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRY-IHSKEKP 73
Query: 112 FKCHQCSRKYMSKPSLRRH 130
FKC +C + + +L H
Sbjct: 74 FKCQECGKGFCQSRTLAVH 92
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Query: 218 KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGV 277
K+ C+ C R F S L H R+H + C C + + + LR H Y + +K
Sbjct: 16 KEFICKFCGRHFTKSYNLLIHE-RTHTDERPYTCDICHKAFRRQDHLRDHRYIH--SKEK 72
Query: 278 RFSCHLCGKSFHREQSLRKH 297
F C CGK F + ++L H
Sbjct: 73 PFKCQECGKGFCQSRTLAVH 92
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%)
Query: 458 LASHAGKTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNKTITSKNSLRDHIHL 515
L S K + C+ C + F L H+R Y+C +C+K ++ LRDH ++
Sbjct: 10 LPSKTKKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYI 67
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECE 469
+ C C + F + +L H + Y C IC + F+ + +L H H+ K ++C+
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQ 77
Query: 470 NCSKIFNSKRKLYSHK 485
C K F R L HK
Sbjct: 78 ECGKGFCQSRTLAVHK 93
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 3/81 (3%)
Query: 107 KTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKHLREEEN 166
KT++ F C C R + +L H TH ++ ++C +C K+F R+ LR H
Sbjct: 13 KTKKEFICKFCGRHFTKSYNLLIH-ERTHTDERP-YTCDICHKAFRRQDHLRDHRYIHSK 70
Query: 167 QDQLHCDKCRYKTFLKSNLIA 187
+ C +C K F +S +A
Sbjct: 71 EKPFKCQECG-KGFCQSRTLA 90
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 36/80 (45%), Gaps = 3/80 (3%)
Query: 81 KQHECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGV 140
K+ C+ C R F S L H R+H + C C + + + LR H Y +K
Sbjct: 16 KEFICKFCGRHFTKSYNLLIHE-RTHTDERPYTCDICHKAFRRQDHLRDHRYIH--SKEK 72
Query: 141 RFSCHLCGKSFHREQSLRKH 160
F C CGK F + ++L H
Sbjct: 73 PFKCQECGKGFCQSRTLAVH 92
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 195 CDICSQDYSTKYYLKLHKQVH-EGKQHECEECSRLFPSSKMLYDH 238
CDIC + + + +L+ H+ +H + K +C+EC + F S+ L H
Sbjct: 48 CDICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKGFCQSRTLAVH 92
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 403 TGTQQCEVYQCYHCLKIFKRKKDLPRHIMSVHMRIK-YPCTICPREFQNKANLNHHLASH 461
+G+ ++Y C C K F K RH MS+H+ ++ Y C +C ++F+ K +L H+ H
Sbjct: 3 SGSSGDKLYPC-QCGKSFTHKSQRDRH-MSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIH 60
Query: 462 AG-KTYECENCSKIFNSKRKLYSH 484
G K YEC C+K F + + H
Sbjct: 61 TGIKPYECNICAKRFMWRDSFHRH 84
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 2/90 (2%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECE 86
+PC CGK F H H Y C +C + + K++L H ++H G K +EC
Sbjct: 11 YPC-QCGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYECN 69
Query: 87 KCPRLFPSSKMLYDHTMRSHKTRELFKCHQ 116
C + F + H K+ E K Q
Sbjct: 70 ICAKRFMWRDSFHRHVTSCTKSYEAAKAEQ 99
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIK-YPCTICPREFQNKANLNHHLASHAGKTYE 467
Y C C K FK K L H M +H IK Y C IC + F + + + H+ S K+YE
Sbjct: 38 YGCGVCGKKFKMKHHLVGH-MKIHTGIKPYECNICAKRFMWRDSFHRHVTS-CTKSYE 93
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 198 CSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSR 256
C + ++ K H +H G + + C C + F L H M+ H ++C+ C++
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGH-MKIHTGIKPYECNICAK 73
Query: 257 KYMSKPSLRRHI 268
++M + S RH+
Sbjct: 74 RFMWRDSFHRHV 85
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 195 CDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLF 229
C +C + + K++L H ++H G K +EC C++ F
Sbjct: 40 CGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRF 75
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 53/110 (48%), Gaps = 8/110 (7%)
Query: 28 FPCVY--CGKIFPRLGLLKEHTKTHHLKVRYTCDI--CSQDYSTKYYLKLHKQVHEG-KQ 82
F C Y C K + +L L+ H++ H + Y CD C + +S LK H++ H G K
Sbjct: 7 FMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKP 66
Query: 83 HECEKCPRLFPSSKMLYDHTMRSHKTRELFKCH--QCSRKYMSKPSLRRH 130
+C+ C R F S L HT R+H + F C C +K+ L RH
Sbjct: 67 FQCKTCQRKFSRSDHLKTHT-RTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 32.3 bits (72), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 35/78 (44%), Gaps = 8/78 (10%)
Query: 5 LAMHIKKMNREPEQHYDKPKQVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQD 64
L MH +K E KP Q +F C + F R LK H + H + C C +
Sbjct: 24 LQMHSRKHTGE------KPYQCDF--KDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRK 75
Query: 65 YSTKYYLKLHKQVHEGKQ 82
+S +LK H + H G++
Sbjct: 76 FSRSDHLKTHTRTHTGEK 93
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 444 CPREFQNKANLNHHLASHAG-KTYECE--NCSKIFNSKRKLYSHKRKDHMGL-TYSCFMC 499
C + + ++L H H G K Y+C+ +C + F+ +L H+R+ H G+ + C C
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRR-HTGVKPFQCKTC 72
Query: 500 NKTITSKNSLRDHIHLFHGRKKLIVEW 526
+ + + L+ H G K W
Sbjct: 73 QRKFSRSDHLKTHTRTHTGEKPFSCRW 99
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 195 CDI--CSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKC 251
CD C + +S LK H++ H G K +C+ C R F S L HT R+H F C
Sbjct: 39 CDFKDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHT-RTHTGEKPFSC 97
Query: 252 H--QCSRKYMSKPSLRRH 267
C +K+ L RH
Sbjct: 98 RWPSCQKKFARSDELVRH 115
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 44/101 (43%), Gaps = 11/101 (10%)
Query: 391 FLLEHLSLKNNI-TGTQQCEVYQC--YHCLKIFKRKKDLPRHIMSVHMRIK-YPCTICPR 446
F L HL + + TG + YQC C + F R L RH H +K + C C R
Sbjct: 19 FKLSHLQMHSRKHTGEK---PYQCDFKDCERRFSRSDQLKRH-QRRHTGVKPFQCKTCQR 74
Query: 447 EFQNKANLNHHLASHAG-KTYECE--NCSKIFNSKRKLYSH 484
+F +L H +H G K + C +C K F +L H
Sbjct: 75 KFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/124 (32%), Positives = 55/124 (44%), Gaps = 18/124 (14%)
Query: 408 CEVYQCYHCLKIFKRKKDLPRHIMSVHMR-----IKYPCTI--CPREFQNKANLNHHLAS 460
C C L+ FK ++++ VHMR + CT C + + NL HL S
Sbjct: 37 CHWGGCSRELRPFK-----AQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRS 91
Query: 461 HAG-KTYECE--NCSKIFNSKRKLYSHKRKDHMGL-TYSCFM--CNKTITSKNSLRDHIH 514
H G K Y CE CSK F++ H+ + H Y C + C K T +SLR H+
Sbjct: 92 HTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVK 151
Query: 515 LFHG 518
HG
Sbjct: 152 TVHG 155
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 70/168 (41%), Gaps = 34/168 (20%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR--FSCHLCG-----KSFHREQSLRKHLREEENQDQ 169
CS+++ S+ L HI + HI+ G R F CH G + F + L H+R +
Sbjct: 9 CSQEFDSQEQLVHHINSEHIH-GERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEKP 67
Query: 170 LHCDKCRYKTFLKSNLIAHVHGKRFCDICSQDYSTKYYLKLHKQVHEGKQH---ECEECS 226
C TF + C + YS LK H + H G++ E E CS
Sbjct: 68 HKC------TF---------------EGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCS 106
Query: 227 RLFPSSKMLYDHTMRSHKTRVLFKCH--QCSRKYMSKPSLRRHIYANH 272
+ F ++ H R+H + C C+++Y SLR+H+ H
Sbjct: 107 KAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 35.4 bits (80), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 54/121 (44%), Gaps = 12/121 (9%)
Query: 27 EFPCVYCG-----KIFPRLGLLKEHTKTHHLKVRYTC--DICSQDYSTKYYLKLHKQVHE 79
EF C + G + F +L H + H + + C + C + YS LK H + H
Sbjct: 34 EFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSHT 93
Query: 80 GKQH---ECEKCPRLFPSSKMLYDHTMRSHKTRELFKCH--QCSRKYMSKPSLRRHIYAT 134
G++ E E C + F ++ H R+H + + C C+++Y SLR+H+
Sbjct: 94 GEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTV 153
Query: 135 H 135
H
Sbjct: 154 H 154
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F +K +L HI + + C IC R F +A+LN H+ +H G K + C+ C +
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRK 71
Query: 475 FNS 477
F +
Sbjct: 72 FAT 74
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F K NL+ H+ H G K ++C C + F+ + L +H R
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + ++ H IHL
Sbjct: 61 KPFACDICGRKFATLHTRTRHTKIHL 86
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S K D +R H ++ F+C C R + + SL HI TH + F+C
Sbjct: 10 ESCDRRF-SQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIR-THTGEKP-FACD 66
Query: 146 LCGKSFH----REQSLRKHLREEE 165
+CG+ F R + + HLR+++
Sbjct: 67 ICGRKFATLHTRTRHTKIHLRQKD 90
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S K D +R H + F+C C R + + SL HI + K F+C
Sbjct: 10 ESCDRRF-SQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKP--FACD 66
Query: 283 LCGKSFH----REQSLRKHLREEE 302
+CG+ F R + + HLR+++
Sbjct: 67 ICGRKFATLHTRTRHTKIHLRQKD 90
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F + L H +TH + + CDIC + ++T + H ++H
Sbjct: 32 QKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTRTRHTKIH 85
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ K +L HI I+ G + F C +C ++F ++ SL H+R + CD C
Sbjct: 12 CDRRFSQKTNLDTHI---RIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDIC 68
Query: 176 RYK 178
K
Sbjct: 69 GRK 71
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 312
C R++ K +L HI I+ G + F C +C ++F ++ SL H+R + CD C
Sbjct: 12 CDRRFSQKTNLDTHI---RIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDIC 68
Query: 313 RYK 315
K
Sbjct: 69 GRK 71
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F + L H + H + + C IC +++S + L H + H G K C+
Sbjct: 8 PVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F + HT
Sbjct: 68 CGRKFATLHTRTRHT 82
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 178 KTFLKSNLIAHVHGKRF-CDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKML 235
KT L +++ H K F C IC +++S + L H + H G K C+ C R F +
Sbjct: 19 KTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTR 78
Query: 236 YDHT 239
HT
Sbjct: 79 TRHT 82
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
Length = 90
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F R DL RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 475 F 475
F
Sbjct: 72 F 72
Score = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F R L H + H + + C IC +++S +L H + H G K C+
Sbjct: 8 PVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 68 CGRKFARSDERKRHT 82
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F A+L H+ H G K ++C C + F+ L +H R
Sbjct: 1 MERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + + H IHL
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHL 86
Score = 35.8 bits (81), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 10 ESCDRRFSRSADLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 66
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 35.8 bits (81), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 10 ESCDRRFSRSADLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 66
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 32 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ L RHI + K F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 69
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 70 RK-FARSD 76
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ L RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSADLTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 69 GRK-FARSD 76
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F R L +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 71 KFARSDERKRHTKIH 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 = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F + +NL H+ H G K ++C C + F+ L +H R
Sbjct: 1 MERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + + H IHL
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHL 86
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 10 ESCDRRFSDSSNLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 66
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 10 ESCDRRFSDSSNLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 66
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 32 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ +L RHI + K F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 69
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 70 RK-FARSD 76
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ +L RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSDSSNLTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 69 GRK-FARSD 76
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F L H + H + + C IC +++S +L H + H G K C+
Sbjct: 8 PVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 68 CGRKFARSDERKRHT 82
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F +L RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 475 F 475
F
Sbjct: 72 F 72
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F +L +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F + G L H + H + + C IC +++S +L H + H G K C+
Sbjct: 8 PVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 68 CGRKFARSDERKRHT 82
Score = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 10 ESCDRRFSQSGSLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 66
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 10 ESCDRRFSQSGSLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 66
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 35.4 bits (80), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F +L H+ H G K ++C C + F+ L +H R
Sbjct: 1 MERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + + H IHL
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHL 86
Score = 35.0 bits (79), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ SL RHI + K F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 69
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 70 RK-FARSD 76
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ SL RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSQSGSLTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 69 GRK-FARSD 76
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F + L RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 475 F 475
F
Sbjct: 72 F 72
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 32 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F + SL +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F +K +L HI + + C IC R F LN H+ +H G K + C+ C +
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRK 71
Query: 475 FNS 477
F +
Sbjct: 72 FAT 74
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F K NL+ H+ H G K ++C C + F+ L H R
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + ++ H IHL
Sbjct: 61 KPFACDICGRKFATLHTRDRHTKIHL 86
Score = 36.2 bits (82), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S K D +R H ++ F+C C R + L +HI TH + F+C
Sbjct: 10 ESCDRRF-SQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHI-RTHTGEKP-FACD 66
Query: 146 LCGKSFH----REQSLRKHLREEE 165
+CG+ F R++ + HLR+++
Sbjct: 67 ICGRKFATLHTRDRHTKIHLRQKD 90
Score = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S K D +R H + F+C C R + L +HI + K F+C
Sbjct: 10 ESCDRRF-SQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKP--FACD 66
Query: 283 LCGKSFH----REQSLRKHLREEE 302
+CG+ F R++ + HLR+++
Sbjct: 67 ICGRKFATLHTRDRHTKIHLRQKD 90
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 19/94 (20%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ K +L HI I+ G + F C +C ++F + L +H+R + CD C
Sbjct: 12 CDRRFSQKTNLDTHI---RIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSNLIAHVHGKRFCDICSQDYSTKYYLK 209
G++F + ++D TK +L+
Sbjct: 69 ---------------GRKFATLHTRDRHTKIHLR 87
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F + L +H +TH + + CDIC + ++T + H ++H
Sbjct: 32 QKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFATLHTRDRHTKIH 85
Score = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 4/63 (6%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 312
C R++ K +L HI I+ G + F C +C ++F + L +H+R + CD C
Sbjct: 12 CDRRFSQKTNLDTHI---RIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDIC 68
Query: 313 RYK 315
K
Sbjct: 69 GRK 71
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F + L H + H + + C IC +++S L H + H G K C+
Sbjct: 8 PVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDI 67
Query: 88 CPRLFPS 94
C R F +
Sbjct: 68 CGRKFAT 74
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYK----TFLKSNLIAHVHGKRF-CDICSQD 201
C + F ++ +L H+R Q C C T L ++ H K F CDIC +
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRK 71
Query: 202 YSTKYYLKLHKQVH 215
++T + H ++H
Sbjct: 72 FATLHTRDRHTKIH 85
>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 = 37.0 bits (84), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F R L H + H + + C IC +++S +L H + H G K C+
Sbjct: 8 PVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 68 CGRKFARSDERKRHT 82
Score = 36.6 bits (83), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F R +L RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 475 F 475
F
Sbjct: 72 F 72
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F A L H+ H G K ++C C + F+ L +H R
Sbjct: 1 MERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + + H IHL
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHL 86
Score = 35.8 bits (81), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 10 ESCDRRFSRSAELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 66
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 35.8 bits (81), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 10 ESCDRRFSRSAELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 66
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 32 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ L RHI + K F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 69
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 70 RK-FARSD 76
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ L RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSAELTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 69 GRK-FARSD 76
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F R L +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 71 KFARSDERKRHTKIH 85
>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 = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 67/172 (38%), Gaps = 31/172 (18%)
Query: 55 RYTCDI--CSQDYSTKYYLKLHKQVHEG-KQHEC--EKCPRLFPSSKMLYDHTMRSHKTR 109
RY C C Y+ + L+ H H G K C E C + F S L H++ +H
Sbjct: 12 RYICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSL-THTGE 70
Query: 110 ELFKCHQ--CSRKYMSKPSLRRHIYATHINKGVRFSCHL--CGKSFHREQSLRKHLREEE 165
+ F C C ++ +K ++++H H K + CH CGK+F + L+ H
Sbjct: 71 KNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHT 130
Query: 166 NQDQLHCDKCRYKTFLKSNLIAHVHGKRFCDICSQDYSTKYYLKLHKQVHEG 217
Q C + C + +S LK H++VH G
Sbjct: 131 QQLPYECPH---------------------EGCDKRFSLPSRLKRHEKVHAG 161
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 37/137 (27%), Positives = 58/137 (42%), Gaps = 10/137 (7%)
Query: 198 CSQDYSTKYYLKLHKQVHEG-KQHECEE--CSRLFPSSKMLYDHTMRSHKTRVLFKCHQ- 253
C Y+ + L+ H H G K C+E C + F S L H++ +H F C
Sbjct: 20 CGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSL-THTGEKNFTCDSD 78
Query: 254 -CSRKYMSKPSLRRHIYANHINKGVRFSCHL--CGKSFHREQSLRKHLREEENQDQLHC- 309
C ++ +K ++++H H K + CH CGK+F + L+ H Q C
Sbjct: 79 GCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECP 138
Query: 310 -DKCRYKTFLKSNLIAH 325
+ C + L S L H
Sbjct: 139 HEGCDKRFSLPSRLKRH 155
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 30 CVY------CGKIFPRLGLLKEHTKTHHLKVRYTC--DICSQDYSTKYYLKLHKQVHEG 80
CVY CGK F + LK H +H ++ Y C + C + +S LK H++VH G
Sbjct: 103 CVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 161
>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 = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 225 CSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLC 284
C+++F + + H + +H RV C +C + ++ L+RH + K + + C
Sbjct: 13 CTKMFRDNSAMRKH-LHTHGPRVHV-CAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGC 70
Query: 285 GKSFHREQSLRKHLREEENQDQLHC--DKCRYKTFLKSNLIAHV 326
GK F + +LR H+R C D C K +NL +H+
Sbjct: 71 GKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 35.4 bits (80), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 53/115 (46%), Gaps = 7/115 (6%)
Query: 22 KPKQVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG- 80
+P+ + P C K+F +++H TH +V + C C + + LK H+ VH G
Sbjct: 2 EPRTIACPHKGCTKMFRDNSAMRKHLHTHGPRV-HVCAECGKAFVESSKLKRHQLVHTGE 60
Query: 81 KQHEC--EKCPRLFPSSKMLYDHTMRSHKTRELFKC--HQCSRKYMSKPSLRRHI 131
K +C E C + F L H +R H + C C++K+ +L+ HI
Sbjct: 61 KPFQCTFEGCGKRFSLDFNLRTH-VRIHTGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 32.7 bits (73), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 2/92 (2%)
Query: 437 IKYPCTICPREFQNKANLNHHLASHAGKTYECENCSKIFNSKRKLYSHKRKDHMGLTYSC 496
I P C + F++ + + HL +H + + C C K F KL H+ + C
Sbjct: 6 IACPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQC 65
Query: 497 FM--CNKTITSKNSLRDHIHLFHGRKKLIVEW 526
C K + +LR H+ + G + + +
Sbjct: 66 TFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPF 97
Score = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 3/103 (2%)
Query: 198 CSQDYSTKYYLKLHKQVHEGKQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKC--HQCS 255
C++ + ++ H H + H C EC + F S L H + H F+C C
Sbjct: 13 CTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQL-VHTGEKPFQCTFEGCG 71
Query: 256 RKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHL 298
+++ +LR H+ + ++ C K F + +L+ H+
Sbjct: 72 KRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 30 CVYCGKIFPRLGLLKEHTKTHHLKVRYTCDI--CSQDYSTKYYLKLHKQVHEG-KQHEC- 85
C CGK F LK H H + + C C + +S + L+ H ++H G + + C
Sbjct: 37 CAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCP 96
Query: 86 -EKCPRLFPSSKMLYDHTMRSHKTR 109
+ C + F S L H + K +
Sbjct: 97 FDGCNKKFAQSTNLKSHILTHAKAK 121
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 48/106 (45%), Gaps = 9/106 (8%)
Query: 61 CSQDYSTKYYLKLHKQVHEGKQHECEKCPRLFPSSKMLYDHTMRSHKTRELFKC--HQCS 118
C++ + ++ H H + H C +C + F S L H + H + F+C C
Sbjct: 13 CTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQL-VHTGEKPFQCTFEGCG 71
Query: 119 RKYMSKPSLRRHIYATHINKGVR-FSCHL--CGKSFHREQSLRKHL 161
+++ +LR H+ I+ G R + C C K F + +L+ H+
Sbjct: 72 KRFSLDFNLRTHV---RIHTGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 39/88 (44%), Gaps = 8/88 (9%)
Query: 188 HVHGKRF--CDICSQDYSTKYYLKLHKQVHEG-KQHEC--EECSRLFPSSKMLYDHTMRS 242
H HG R C C + + LK H+ VH G K +C E C + F L H +R
Sbjct: 28 HTHGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTH-VRI 86
Query: 243 HKTRVLFKC--HQCSRKYMSKPSLRRHI 268
H + C C++K+ +L+ HI
Sbjct: 87 HTGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 30/134 (22%), Positives = 56/134 (41%), Gaps = 29/134 (21%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVRF-SCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C++ + ++R+H++ TH G R C CGK+F L++H + C
Sbjct: 13 CTKMFRDNSAMRKHLH-TH---GPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQC--- 65
Query: 176 RYKTFLKSNLIAHVHGKRFCDICSQDYSTKYYLKLHKQVHEG-KQHEC--EECSRLFPSS 232
TF + C + +S + L+ H ++H G + + C + C++ F S
Sbjct: 66 ---TF---------------EGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQS 107
Query: 233 KMLYDHTMRSHKTR 246
L H + K +
Sbjct: 108 TNLKSHILTHAKAK 121
>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 = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F R +L RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 475 F 475
F
Sbjct: 72 F 72
Score = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F R L H + H + + C IC +++S +L H + H G K C+
Sbjct: 8 PVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 68 CGRKFARSDERKRHT 82
Score = 36.2 bits (82), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 10 ESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 66
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 10 ESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 66
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 32 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 435 MRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
M Y C + C R F L H+ H G K ++C C + F+ L +H R
Sbjct: 1 MERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60
Query: 492 LTYSCFMCNKTITSKNSLRDH--IHL 515
++C +C + + + H IHL
Sbjct: 61 KPFACDICGRKFARSDERKRHTKIHL 86
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ L RHI + K F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 69
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 70 RK-FARSD 76
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ L RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSDELTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 69 GRK-FARSD 76
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F R L +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 71 KFARSDERKRHTKIH 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 = 36.6 bits (83), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F R +L RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 70
Query: 475 F 475
F
Sbjct: 71 F 71
Score = 36.2 bits (82), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F R L H + H + + C IC +++S +L H + H G K C+
Sbjct: 7 PVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 66
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 67 CGRKFARSDERKRHT 81
Score = 35.8 bits (81), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 9 ESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 65
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 66 ICGRKFARSDERKRHTK 82
Score = 35.8 bits (81), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 9 ESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 65
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 66 ICGRKFARSDERKRHTK 82
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 31 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 84
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 3/79 (3%)
Query: 440 PCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFM 498
P C R F L H+ H G K ++C C + F+ L +H R ++C +
Sbjct: 7 PVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 66
Query: 499 CNKTITSKNSLRDH--IHL 515
C + + + H IHL
Sbjct: 67 CGRKFARSDERKRHTKIHL 85
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ L RHI + K F C +C ++F R L H+R + CD C
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 68
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 69 RK-FARSD 75
Score = 33.1 bits (74), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ L RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 11 CDRRFSRSDELTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 67
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 68 GRK-FARSD 75
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F R L +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 69
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 70 KFARSDERKRHTKIH 84
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKI 474
C + F R +L RHI + + C IC R F +L H+ +H G K + C+ C +
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 475 F 475
F
Sbjct: 72 F 72
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 29 PCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEK 87
P C + F R L H + H + + C IC +++S +L H + H G K C+
Sbjct: 8 PVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 88 CPRLFPSSKMLYDHT 102
C R F S HT
Sbjct: 68 CGRKFARSDERKRHT 82
Score = 35.8 bits (81), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 86 EKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
E C R F S L H +R H ++ F+C C R + L HI TH + F+C
Sbjct: 10 ESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIR-THTGEKP-FACD 66
Query: 146 LCGKSFHREQSLRKHLR 162
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 35.4 bits (80), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 223 EECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
E C R F S L H +R H + F+C C R + L HI + K F+C
Sbjct: 10 ESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP--FACD 66
Query: 283 LCGKSFHREQSLRKHLR 299
+CG+ F R ++H +
Sbjct: 67 ICGRKFARSDERKRHTK 83
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 25 QVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
Q F C C + F R L H +TH + + CDIC + ++ K H ++H
Sbjct: 32 QKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 3/79 (3%)
Query: 440 PCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFM 498
P C R F L H+ H G K ++C C + F+ L +H R ++C +
Sbjct: 8 PVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 499 CNKTITSKNSLRDH--IHL 515
C + + + H IHL
Sbjct: 68 CGRKFARSDERKRHTKIHL 86
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C R++ L RHI + K F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKP--FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICG 69
Query: 314 YKTFLKSN 321
K F +S+
Sbjct: 70 RK-FARSD 76
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 117 CSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKC 175
C R++ L RHI I+ G + F C +C ++F R L H+R + CD C
Sbjct: 12 CDRRFSRSDELTRHI---RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
Query: 176 RYKTFLKSN 184
K F +S+
Sbjct: 69 GRK-FARSD 76
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSN-----LIAHVHGKRF-CDICSQ 200
C + F R L +H+R Q C C + F +S+ + H K F CDIC +
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRIC-MRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 201 DYSTKYYLKLHKQVH 215
++ K H ++H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 36.6 bits (83), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 436 RIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKR 486
R +Y C C + F + ++L+ H +H G K Y+C+ C K F + L H R
Sbjct: 16 RRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHR 67
Score = 35.8 bits (81), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 23/48 (47%)
Query: 141 RFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAH 188
R+ C CGKSF L KH R + CD+C +S+LI H
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
Score = 35.8 bits (81), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 23/48 (47%)
Query: 278 RFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAH 325
R+ C CGKSF L KH R + CD+C +S+LI H
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
Score = 35.0 bits (79), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG 80
+ C CGK F L +H +TH + Y CD C + + + +L H +VH G
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVHTG 71
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 55 RYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDH 101
RY CD C + +S L H++ H G K ++C++C + F L H
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 195 CDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDH 238
CD C + +S L H++ H G K ++C+EC + F L H
Sbjct: 21 CDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
Score = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 213 QVHEGKQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSL 264
Q E ++++C+EC + F S L H R+H +KC +C + ++ + L
Sbjct: 12 QQRERRRYKCDECGKSFSHSSDLSKH-RRTHTGEKPYKCDECGKAFIQRSHL 62
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 23/53 (43%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG 463
Y+C C K F DL +H + Y C C + F +++L H H G
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVHTG 71
>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 = 36.2 bits (82), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 35/90 (38%), Gaps = 1/90 (1%)
Query: 431 MSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDH 489
+ V R+ Y C +C R + +L H H+ K Y C C K+F H+
Sbjct: 15 LIVDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHT 74
Query: 490 MGLTYSCFMCNKTITSKNSLRDHIHLFHGR 519
Y C C K+ + + HI H +
Sbjct: 75 GERRYQCLACGKSFINYQFMSSHIKSVHSQ 104
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 52/116 (44%), Gaps = 8/116 (6%)
Query: 10 KKMNREPEQHYD--KPKQVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYST 67
K+M + + HY+ +V + C+ C + + L L+ H H + +Y C C + +
Sbjct: 3 KRMKVKHDDHYELIVDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPL 62
Query: 68 KYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDHTMRSHK-----TRELFKCHQC 117
Y H+ H G ++++C C + F + + + H H +L++ H C
Sbjct: 63 AEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSHIKSVHSQDPSGDSKLYRLHPC 118
Score = 32.0 bits (71), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 28/117 (23%), Positives = 45/117 (38%), Gaps = 32/117 (27%)
Query: 53 KVRYTCDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDHTMRSHKTREL 111
+V Y C +C + Y L+ H +H K++ C C ++FP ++ H + H T E
Sbjct: 20 RVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEI--HHTGER 77
Query: 112 FKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKHLREEENQD 168
R+ C CGKSF Q + H++ +QD
Sbjct: 78 -----------------------------RYQCLACGKSFINYQFMSSHIKSVHSQD 105
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 3/88 (3%)
Query: 237 DHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRK 296
DH RV + C C R Y+ SLRRH + K ++ C C K F + K
Sbjct: 11 DHYELIVDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEK--KYPCRYCEKVFPLAEYRTK 68
Query: 297 HLREEENQDQLHCDKCRYKTFLKSNLIA 324
H + + C C K+F+ ++
Sbjct: 69 HEIHHTGERRYQCLACG-KSFINYQFMS 95
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 194 FCDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCH 252
C +C + Y L+ H +H K++ C C ++FP ++ H + H ++C
Sbjct: 24 ICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIH-HTGERRYQCL 82
Query: 253 QCSRKYMSKPSLRRHIYANH 272
C + +++ + HI + H
Sbjct: 83 ACGKSFINYQFMSSHIKSVH 102
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 32/80 (40%), Gaps = 1/80 (1%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLASHAG-KTYECE 469
Y C C + + L RH KYPC C + F H H G + Y+C
Sbjct: 23 YICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQCL 82
Query: 470 NCSKIFNSKRKLYSHKRKDH 489
C K F + + + SH + H
Sbjct: 83 ACGKSFINYQFMSSHIKSVH 102
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 35.8 bits (81), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
+ CV CGK F R +L +H + H + Y C C + +S L H+++H
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIH 65
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 439 YPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKR 486
Y C C + F + L H H G K Y+C C K F+ L +H+R
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQR 63
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 20/49 (40%)
Query: 464 KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNKTITSKNSLRDH 512
K Y C C K F+ L H+R Y C C K + + L +H
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINH 61
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 218 KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRH 267
K + C EC + F S +L H R H +KC +C + + L H
Sbjct: 13 KPYGCVECGKAFSRSSILVQH-QRVHTGEKPYKCLECGKAFSQNSGLINH 61
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 56 YTCDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDH 101
Y C C + +S L H++VH G K ++C +C + F + L +H
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINH 61
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 35.4 bits (80), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 33 CGKIFPRLGLLKEHTKTHHLKVRYTCDI--CSQDYSTKYYLKLHKQVHEG-KQHECEKCP 89
CGK + + LK H +TH + Y CD C ++ L H + H G + +C+KC
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 72
Query: 90 RLFPSSKMLYDHTMR 104
R F S L H R
Sbjct: 73 RAFSRSDHLALHMKR 87
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 36/96 (37%), Gaps = 22/96 (22%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGKRFCDICSQDYSTKY 206
CGK++ + L+ HLR + HCD D C ++
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCD---------------------WDGCGWKFARSD 51
Query: 207 YLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMR 241
L H + H G + +C++C R F S L H R
Sbjct: 52 ELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKR 87
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 56 YTCDI--CSQDYSTKYYLKLHKQVHEGKQH---ECEKCPRLFPSSKMLYDHTMRSHKTRE 110
+TCD C + Y+ +LK H + H G++ + + C F S L H R H
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRH-YRKHTGHR 64
Query: 111 LFKCHQCSRKYMSKPSLRRHI 131
F+C +C R + L H+
Sbjct: 65 PFQCQKCDRAFSRSDHLALHM 85
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C + Y L+ H+ + K CG F R L +H R+ C KC
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 72
Query: 314 YKTFLKSNLIA 324
+ F +S+ +A
Sbjct: 73 -RAFSRSDHLA 82
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 35.4 bits (80), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 33 CGKIFPRLGLLKEHTKTHHLKVRYTCDI--CSQDYSTKYYLKLHKQVHEG-KQHECEKCP 89
CGK + + LK H +TH + Y CD C ++ L H + H G + +C+KC
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 73
Query: 90 RLFPSSKMLYDHTMR 104
R F S L H R
Sbjct: 74 RAFSRSDHLALHMKR 88
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 36/96 (37%), Gaps = 22/96 (22%)
Query: 147 CGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGKRFCDICSQDYSTKY 206
CGK++ + L+ HLR + HCD D C ++
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCD---------------------WDGCGWKFARSD 52
Query: 207 YLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMR 241
L H + H G + +C++C R F S L H R
Sbjct: 53 ELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKR 88
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 6/83 (7%)
Query: 54 VRYTCDI--CSQDYSTKYYLKLHKQVHEGKQH---ECEKCPRLFPSSKMLYDHTMRSHKT 108
+TCD C + Y+ +LK H + H G++ + + C F S L H R H
Sbjct: 5 ATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRH-YRKHTG 63
Query: 109 RELFKCHQCSRKYMSKPSLRRHI 131
F+C +C R + L H+
Sbjct: 64 HRPFQCQKCDRAFSRSDHLALHM 86
Score = 28.5 bits (62), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 254 CSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCR 313
C + Y L+ H+ + K CG F R L +H R+ C KC
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD 73
Query: 314 YKTFLKSNLIA 324
+ F +S+ +A
Sbjct: 74 -RAFSRSDHLA 83
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 6/79 (7%)
Query: 195 CDI--CSQDYSTKYYLKLHKQVHEGKQH---ECEECSRLFPSSKMLYDHTMRSHKTRVLF 249
CD C + Y+ +LK H + H G++ + + C F S L H R H F
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRH-YRKHTGHRPF 67
Query: 250 KCHQCSRKYMSKPSLRRHI 268
+C +C R + L H+
Sbjct: 68 QCQKCDRAFSRSDHLALHM 86
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 439 YPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMG 491
+ C +C R F + +L H SH K Y C C++ F + L H +K H G
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSG 56
Score = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQ-VHEGKQHE 84
F C C + F R LK H ++H + Y C +C++ ++ + L H Q +H G E
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSGNLGE 60
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 24/52 (46%)
Query: 279 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGYH 330
F C +C ++F R++ L++H R N+ C C + LI H H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHLAS-HAGKTYE 467
+ C C + F R++ L RH S YPC +C R F + L H H+G E
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSGNLGE 60
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 112 FKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKH 160
F C C+R + + L+RH Y +H N+ + C LC ++F R L +H
Sbjct: 3 FVCEVCTRAFARQEHLKRH-YRSHTNEKP-YPCGLCNRAFTRRDLLIRH 49
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 142 FSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLI 186
F C +C ++F R++ L++H R N+ C C + F + +L+
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCN-RAFTRRDLL 46
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKH 297
F C C+R + + L+RH Y +H N+ + C LC ++F R L +H
Sbjct: 3 FVCEVCTRAFARQEHLKRH-YRSHTNEKP-YPCGLCNRAFTRRDLLIRH 49
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 24/53 (45%)
Query: 465 TYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNKTITSKNSLRDHIHLFH 517
++ CE C++ F + L H R Y C +CN+ T ++ L H H
Sbjct: 2 SFVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 195 CDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSH 243
C++C++ ++ + +LK H + H K + C C+R F +L H + H
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 2/87 (2%)
Query: 191 GKRFCDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSHKTRVLF 249
G C++C + +S K LK H + H G K ++C+ C S L H +R H F
Sbjct: 7 GPHKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKH-LRIHSDERPF 65
Query: 250 KCHQCSRKYMSKPSLRRHIYANHINKG 276
KC C + L H+ ++ + G
Sbjct: 66 KCQICPYASRNSSQLTVHLRSHTGDSG 92
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 30 CVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH-EGKQHECEKC 88
C CGK F R LK H + H Y C C + L H ++H + + +C+ C
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQIC 70
Query: 89 PRLFPSSKMLYDHTMRSH 106
P +S L H +RSH
Sbjct: 71 PYASRNSSQLTVH-LRSH 87
Score = 32.7 bits (73), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 31/79 (39%), Gaps = 5/79 (6%)
Query: 144 CHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAH--VHGKRF---CDIC 198
C +CGK F R+ L+ H+R C C Y S+L H +H C IC
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQIC 70
Query: 199 SQDYSTKYYLKLHKQVHEG 217
L +H + H G
Sbjct: 71 PYASRNSSQLTVHLRSHTG 89
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 10/89 (11%)
Query: 58 CDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQ 116
C++C + +S K LK H + H G K ++C+ C S L H +R H FKC
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKH-LRIHSDERPFKCQI 69
Query: 117 CSRKYMSKPS------LRRHIYATHINKG 139
C Y S+ S LR H + + G
Sbjct: 70 C--PYASRNSSQLTVHLRSHTGDSGPSSG 96
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 281 CHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHV 326
C +CGK F R+ L+ H+R C C Y S+L H+
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHL 56
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 4/78 (5%)
Query: 113 KCHQCSRKYMSKPSLRRHIYATHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLH 171
KC C + + K L+ H+ + GV+ + C C + SL KHLR ++
Sbjct: 10 KCEVCGKCFSRKDKLKTHM---RCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFK 66
Query: 172 CDKCRYKTFLKSNLIAHV 189
C C Y + S L H+
Sbjct: 67 CQICPYASRNSSQLTVHL 84
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 4/78 (5%)
Query: 250 KCHQCSRKYMSKPSLRRHIYANHINKGVR-FSCHLCGKSFHREQSLRKHLREEENQDQLH 308
KC C + + K L+ H+ + GV+ + C C + SL KHLR ++
Sbjct: 10 KCEVCGKCFSRKDKLKTHM---RCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFK 66
Query: 309 CDKCRYKTFLKSNLIAHV 326
C C Y + S L H+
Sbjct: 67 CQICPYASRNSSQLTVHL 84
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 459 ASHAGKTYECENCSKIFNSKRKLYSHKRKDHMGL-TYSCFMCNKTITSKNSLRDHIHL 515
+S + ++CE C K F+ K KL +H R H G+ Y C C+ +SL H+ +
Sbjct: 2 SSGSSGPHKCEVCGKCFSRKDKLKTHMRC-HTGVKPYKCKTCDYAAADSSSLNKHLRI 58
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 36/94 (38%), Gaps = 33/94 (35%)
Query: 400 NNITGTQQCEVYQCYHCLKIFKRKKDLPRHI-----------------------MSVHMR 436
+ +G +CEV C K F RK L H+ ++ H+R
Sbjct: 3 SGSSGPHKCEV-----CGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLR 57
Query: 437 I-----KYPCTICPREFQNKANLNHHLASHAGKT 465
I + C ICP +N + L HL SH G +
Sbjct: 58 IHSDERPFKCQICPYASRNSSQLTVHLRSHTGDS 91
Score = 28.5 bits (62), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 32/76 (42%), Gaps = 3/76 (3%)
Query: 441 CTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMC 499
C +C + F K L H+ H G K Y+C+ C L H R + C +C
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQIC 70
Query: 500 NKTITSKNSLRDHIHL 515
S+NS + +HL
Sbjct: 71 --PYASRNSSQLTVHL 84
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 5/78 (6%)
Query: 439 YPCTICPREFQNKANLNHHLASHAG-KTYEC--ENCSKIFNSKRKLYSHKRKDHMGLTYS 495
YP C + + ++L HL +H G K Y+C E C F +L H RK +
Sbjct: 20 YP--GCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQ 77
Query: 496 CFMCNKTITSKNSLRDHI 513
C +CN++ + + L H+
Sbjct: 78 CGVCNRSFSRSDHLALHM 95
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 5/81 (6%)
Query: 225 CSRLFPSSKMLYDHTMRSHKTRVLFKC--HQCSRKYMSKPSLRRHIYANHINKGVRFSCH 282
C++++ S L H +R+H +KC C ++ L RH Y H F C
Sbjct: 23 CTKVYTKSSHLKAH-LRTHTGEKPYKCTWEGCDWRFARSDELTRH-YRKHTG-AKPFQCG 79
Query: 283 LCGKSFHREQSLRKHLREEEN 303
+C +SF R L H++ +N
Sbjct: 80 VCNRSFSRSDHLALHMKRHQN 100
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 5/81 (6%)
Query: 88 CPRLFPSSKMLYDHTMRSHKTRELFKC--HQCSRKYMSKPSLRRHIYATHINKGVRFSCH 145
C +++ S L H +R+H + +KC C ++ L RH Y H F C
Sbjct: 23 CTKVYTKSSHLKAH-LRTHTGEKPYKCTWEGCDWRFARSDELTRH-YRKHTG-AKPFQCG 79
Query: 146 LCGKSFHREQSLRKHLREEEN 166
+C +SF R L H++ +N
Sbjct: 80 VCNRSFSRSDHLALHMKRHQN 100
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 6/80 (7%)
Query: 194 FCDI--CSQDYSTKYYLKLHKQVHEG-KQHEC--EECSRLFPSSKMLYDHTMRSHKTRVL 248
+CD C++ Y+ +LK H + H G K ++C E C F S L H R H
Sbjct: 17 YCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRH-YRKHTGAKP 75
Query: 249 FKCHQCSRKYMSKPSLRRHI 268
F+C C+R + L H+
Sbjct: 76 FQCGVCNRSFSRSDHLALHM 95
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 12/80 (15%)
Query: 416 CLKIFKRKKDLPRHIMSVHMRIKYPCTI--CPREFQNKANLNHHLASHAG-KTYECENCS 472
C K++ + L H+ + Y CT C F L H H G K ++C C+
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCN 82
Query: 473 KIFNSKRKLYSHKRKDHMGL 492
+ F+ R DH+ L
Sbjct: 83 RSFS---------RSDHLAL 93
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 21 DKPKQVEFPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVHEG 80
DKP + C C F G L H H + Y C+IC ++ LK H ++H G
Sbjct: 15 DKP----YKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSG 70
Query: 81 KQ 82
++
Sbjct: 71 EK 72
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMRIK-YPCTICPREFQNKANLNHHLASHAGK 464
Y+C C F+ K +L H +VH K Y C IC +F ANL H H+G+
Sbjct: 18 YKCDRCQASFRYKGNLASH-KTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGE 71
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 439 YPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKR 486
Y C C F+ K NL H H G K Y C C FN L +H R
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 172 CDKC----RYKTFLKSNLIAHVHGKRF-CDICSQDYSTKYYLKLHKQVHEGKQ 219
CD+C RYK L S+ H K + C+IC ++ LK H ++H G++
Sbjct: 20 CDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGEK 72
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 23/57 (40%)
Query: 464 KTYECENCSKIFNSKRKLYSHKRKDHMGLTYSCFMCNKTITSKNSLRDHIHLFHGRK 520
K Y+C+ C F K L SHK Y C +C +L+ H + G K
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGEK 72
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLR 299
+KC +C + K +L H + K R C++CG F+R +L+ H R
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYR--CNICGAQFNRPANLKTHTR 66
Score = 28.5 bits (62), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 56 YTCDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDHT 102
Y CD C + K L HK VH G K + C C F L HT
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHT 65
>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 = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 21/27 (77%)
Query: 56 YTCDICSQDYSTKYYLKLHKQVHEGKQ 82
Y C+ C +D+S+K YL +H+++H G++
Sbjct: 11 YGCNECGKDFSSKSYLIVHQRIHTGEK 37
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 20/25 (80%)
Query: 195 CDICSQDYSTKYYLKLHKQVHEGKQ 219
C+ C +D+S+K YL +H+++H G++
Sbjct: 13 CNECGKDFSSKSYLIVHQRIHTGEK 37
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 32.3 bits (72), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 28 FPCVY--CGKIFPRLGLLKEHTKTHHLKVRYTCDI--CSQDYSTKYYLKLHKQVH 78
FPC + CGKIF R LK H +TH + + C+ C + ++ K H VH
Sbjct: 91 FPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHMHVH 145
>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 = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 411 YQCYHCLKIFKRKKDLPRHIMSVHMR-IK-YPCTICPREFQNKANLNHHL 458
Y+C C +++ + RH ++ H R +K YPC C +EF K N+ H+
Sbjct: 11 YRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHV 60
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 24/51 (47%)
Query: 112 FKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKHLR 162
++C CSR Y + RH +H + C C K F R+ ++ H++
Sbjct: 11 YRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVK 61
Score = 28.9 bits (63), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 24/51 (47%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLR 299
++C CSR Y + RH +H + C C K F R+ ++ H++
Sbjct: 11 YRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVK 61
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2 Domains
Of Zinc Finger Protein 692
Length = 78
Score = 32.0 bits (71), Expect = 0.92, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 441 CTICPREFQNKANLNHHLASHAGKT----YECENCSKIFNSKRKLYSHKRKDHMGL 492
C IC + KA+LN H HA + CE C K F + +H+ K H L
Sbjct: 10 CEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHPAL 65
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 32.0 bits (71), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 30/63 (47%)
Query: 102 TMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKHL 161
+ R+H + ++C+ C ++ +++ HI H +F C C R+ L HL
Sbjct: 6 SGRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHL 65
Query: 162 REE 164
R++
Sbjct: 66 RKQ 68
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 29/63 (46%)
Query: 239 TMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHL 298
+ R+H ++C+ C ++ +++ HI H +F C C R+ L HL
Sbjct: 6 SGRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHL 65
Query: 299 REE 301
R++
Sbjct: 66 RKQ 68
>pdb|1OG6|A Chain A, Ydhf, An Aldo-keto Reductase From E.coli Complexed With
Nadph
pdb|1OG6|B Chain B, Ydhf, An Aldo-keto Reductase From E.coli Complexed With
Nadph
pdb|1OG6|C Chain C, Ydhf, An Aldo-keto Reductase From E.coli Complexed With
Nadph
Length = 298
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 382 NVSTKQSCQFLLEHLSLKNNITGTQQCEVYQCYHCLKIFKRKKDLPRHIMSVHMRIKYPC 441
N+S +Q F+ EHL L +T ++Y Y C F L H+ M I C
Sbjct: 28 NMSARQLVSFIEEHLDL--GVTTVDHADIYGGYQCEAAFGEALKLAPHLRE-RMEIVSKC 84
Query: 442 TIC 444
I
Sbjct: 85 GIA 87
>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 = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%)
Query: 28 FPCVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQV 77
F C C + F R L H +TH + + CDIC + ++ K H+ +
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDI 53
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 439 YPCTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDHM 490
+ C IC R F +L H+ +H G K + C+ C + F + H+ H+
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDIQHI 56
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 81 KQHECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHI 136
K +C C R F S L H +R+H + F C C RK+ +RH HI
Sbjct: 2 KPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKRHRDIQHI 56
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 218 KQHECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANHI 273
K +C C R F S L H +R+H F C C RK+ +RH HI
Sbjct: 2 KPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKRHRDIQHI 56
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 112 FKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKH 160
F+C C R + L HI TH + F+C +CG+ F R ++H
Sbjct: 4 FQCRICMRNFSRSDHLTTHIR-THTGEKP-FACDICGRKFARSDERKRH 50
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKH 297
F+C C R + L HI + K F+C +CG+ F R ++H
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKP--FACDICGRKFARSDERKRH 50
>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 = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 23/54 (42%)
Query: 405 TQQCEVYQCYHCLKIFKRKKDLPRHIMSVHMRIKYPCTICPREFQNKANLNHHL 458
+ E + C C + F K RH+ +H +PC CP F + L H+
Sbjct: 23 SASAECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHI 76
Score = 30.0 bits (66), Expect = 3.0, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 2/54 (3%)
Query: 84 ECEKCPRLFPS--SKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATH 135
EC CP S SK + +R ++F C C + S P L RHI H
Sbjct: 27 ECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCH 80
Score = 30.0 bits (66), Expect = 3.6, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 220 HECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHIYANH 272
H C C F S H H +V F C C + S P L RHI H
Sbjct: 29 HLCPVCGESFASKGAQERHLRLLHAAQV-FPCKYCPATFYSSPGLTRHINKCH 80
Score = 28.9 bits (63), Expect = 7.7, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 441 CTICPREFQNKANLNHHLAS-HAGKTYECENCSKIFNSKRKLYSHKRKDH 489
C +C F +K HL HA + + C+ C F S L H K H
Sbjct: 31 CPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCH 80
>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 = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%)
Query: 30 CVYCGKIFPRLGLLKEHTKTHHLKVRYTCDICSQDYSTKYYLKLHKQVH 78
C YCGK F L H +TH + Y C+ C + K L+ H + H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 193 RFCDICSQDYSTKYYLKLHKQVHEG-KQHECEECSRLFPSSKMLYDHTMRSHK 244
R C C + + + YYL +H + H G K ++CE C L H R HK
Sbjct: 5 RECSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 58 CDICSQDYSTKYYLKLHKQVHEG-KQHECEKCPRLFPSSKMLYDHTMRSHK 107
C C + + + YYL +H + H G K ++CE C L H R HK
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 84 ECEKCPRLFPSSKMLYDHTMRSHKTRELFKCHQCSRKYMSKPSLRRHI 131
EC C + F S+ L H +R+H + +KC C K SLR H+
Sbjct: 6 ECSYCGKFFRSNYYLNIH-LRTHTGEKPYKCEFCEYAAAQKTSLRYHL 52
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 281 CHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGYHR 331
C CGK F L HLR + C+ C Y K++L H+ +H+
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 441 CTICPREFQNKANLNHHLASHAG-KTYECENCSKIFNSKRKLYSHKRKDH 489
C+ C + F++ LN HL +H G K Y+CE C K L H + H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 221 ECEECSRLFPSSKMLYDHTMRSHKTRVLFKCHQCSRKYMSKPSLRRHI 268
EC C + F S+ L H +R+H +KC C K SLR H+
Sbjct: 6 ECSYCGKFFRSNYYLNIH-LRTHTGEKPYKCEFCEYAAAQKTSLRYHL 52
>pdb|2WBT|A Chain A, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
pdb|2WBT|B Chain B, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
Length = 129
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 4/70 (5%)
Query: 445 PREFQNKANLNHHLASHAGKTYECENCSKIFNSKRKLYSHKR-KDHMGLTYSCFMCNKTI 503
P+ + L LAS A + C C F+S L H R +H T C +C K
Sbjct: 54 PQLLDESSYLYRLLASKAISQFVCPLCLMPFSSSVSLKQHIRYTEH---TKVCPVCKKEF 110
Query: 504 TSKNSLRDHI 513
TS +S DH+
Sbjct: 111 TSTDSALDHV 120
>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 = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 23/52 (44%)
Query: 141 RFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHVHGK 192
++ C CG + L+KH+R + HC C + K NL H+ K
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKSK 52
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 22/49 (44%)
Query: 278 RFSCHLCGKSFHREQSLRKHLREEENQDQLHCDKCRYKTFLKSNLIAHV 326
++ C CG + L+KH+R + HC C + K NL H+
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHM 49
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 20/27 (74%)
Query: 56 YTCDICSQDYSTKYYLKLHKQVHEGKQ 82
Y CD+C +++S +L+ H++VH G++
Sbjct: 13 YKCDVCGKEFSQSSHLQTHQRVHTGEK 39
>pdb|3K4O|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From
Methanocaldococcus Jannaschii
pdb|3K4O|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From
Methanocaldococcus Jannaschii
pdb|3K4Y|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp
pdb|3K4Y|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp
pdb|3K52|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ip
pdb|3K52|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ip
pdb|3K56|A Chain A, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp Beta-S
pdb|3K56|B Chain B, Crystal Structure Of Isopentenyl Phosphate Kinase From M.
Jannaschii In Complex With Ipp Beta-S
Length = 266
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 28/111 (25%), Positives = 50/111 (45%), Gaps = 14/111 (12%)
Query: 305 DQLHCDKCRYKTFLKSNLIAHVHGYHRLAITLTDITMNH-SGIKLECSPDL-KYVKNEIR 362
D+L D K LK NL+ +HG DI ++ +G ++ D+ Y+ NE++
Sbjct: 127 DKLIFDTSAIKEMLKRNLVPVIHG---------DIVIDDKNGYRIISGDDIVPYLANELK 177
Query: 363 EDLQT-IIKIDETKFHQESLNVSTKQSCQFLLEHLSLKNNI--TGTQQCEV 410
DL +D + + K + +L +LS N+I TG + ++
Sbjct: 178 ADLILYATDVDGVLIDNKPIKRIDKNNIYKILNYLSGSNSIDVTGGMKYKI 228
>pdb|2YSP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
507- 539) Of Human Zinc Finger Protein 224
Length = 46
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 20/27 (74%)
Query: 56 YTCDICSQDYSTKYYLKLHKQVHEGKQ 82
Y C+ C + Y++K+ L +H++VH G++
Sbjct: 13 YKCEKCGKGYNSKFNLDMHQKVHTGER 39
>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 = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 33 CGKIFPRLGLLKEHTKTHHLKVRYTC--DICSQDYSTKYYLKLHKQVHEG 80
CGK F + LK H +H ++ Y C + C + +S LK H++VH G
Sbjct: 9 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
>pdb|2EL5|A Chain A, Solution Structure Of The 18th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 42
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 466 YECENCSKIFNSKRKLYSHKR 486
YEC C K FN K +L SH+R
Sbjct: 11 YECSECGKAFNRKDQLISHQR 31
>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 = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 33 CGKIFPRLGLLKEHTKTHHLKVRYTC--DICSQDYSTKYYLKLHKQVHEG 80
CGK F + LK H +H ++ Y C + C + +S LK H++VH G
Sbjct: 9 CGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 460 SHAG-KTYECENCSKIFNSKRKLYSHKRKDH----MGLTYSCFMCNKTITSKNSLRDHI 513
+H G K Y C +C K F K+ L H ++ H + + C C KT T +N++ H
Sbjct: 9 THTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHA 67
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 2/71 (2%)
Query: 102 TMRSHKTRELFKCHQCSRKYMSKPSLRRHIYATHINKGV--RFSCHLCGKSFHREQSLRK 159
+ R+H + + C C + + K L H H V F C CGK+F R ++ +
Sbjct: 6 SGRTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMAR 65
Query: 160 HLREEENQDQL 170
H D +
Sbjct: 66 HADNCAGPDGV 76
>pdb|2EOF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
411- 441) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 464 KTYECENCSKIFNSKRKLYSHKR 486
K YEC C K FN+K L H+R
Sbjct: 11 KPYECNECQKAFNTKSNLMVHQR 33
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 112 FKCHQCSRKYMSKPSLRRHIYATHINKGVRFSCHLCGKSFHREQSLRKHLREEENQ 167
F C+ C + Y L RH A H+ R SC CGK F + + +HL+ +N+
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRA-HLGYRPR-SCPECGKCFRDQSEVNRHLKVHQNK 58
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 249 FKCHQCSRKYMSKPSLRRHIYANHINKGVRFSCHLCGKSFHREQSLRKHLREEENQ 304
F C+ C + Y L RH A H+ R SC CGK F + + +HL+ +N+
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRA-HLGYRPR-SCPECGKCFRDQSEVNRHLKVHQNK 58
>pdb|2EP2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
603- 635) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 56 YTCDICSQDYSTKYYLKLHKQVHEGKQ 82
Y C IC + ++ K L +H+Q+H G++
Sbjct: 13 YECSICGKSFTKKSQLHVHQQIHTGEK 39
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
0.324 0.135 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,943,309
Number of Sequences: 62578
Number of extensions: 653173
Number of successful extensions: 3641
Number of sequences better than 100.0: 106
Number of HSP's better than 100.0 without gapping: 79
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 2508
Number of HSP's gapped (non-prelim): 878
length of query: 526
length of database: 14,973,337
effective HSP length: 103
effective length of query: 423
effective length of database: 8,527,803
effective search space: 3607260669
effective search space used: 3607260669
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)