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= psy1773
(359 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 57/174 (32%), Positives = 80/174 (45%), Gaps = 11/174 (6%)
Query: 79 WSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 138
+ C +C + HL KH ++PF CK C GF S H L RH +H
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCK-----EEGCEKGFTSLHHLTRHSLTH 67
Query: 139 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVR--HGKPLTLCCEELGCGRKFQTMKQYSTHL 196
+K + CD C+ RFTT +N+K H R + K C CG+ F+ Q H
Sbjct: 68 TGEKN-FTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQ 126
Query: 197 KEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP--EDLVCKGCGKQFKV 248
H+ PY C ++GC K F L + LK H++VH P +D C GK + +
Sbjct: 127 FSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCKKDDSCSFVGKTWTL 179
Score = 71.6 bits (174), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 47/147 (31%), Positives = 71/147 (48%), Gaps = 5/147 (3%)
Query: 130 KLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM 189
KL H+ H +K +PC ++ C K FT+L +L H + H C+ GC +F T
Sbjct: 29 KLQAHLCKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTK 87
Query: 190 KQYSTHLKEHSNVS-APYMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFK 247
H N+ Y+C ++ CGK+F LK HQ H P + +GC K+F
Sbjct: 88 ANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFS 147
Query: 248 VPCRLREHYK--AVHESTKNFKCTYDG 272
+P RL+ H K A + K+ C++ G
Sbjct: 148 LPSRLKRHEKVHAGYPCKKDDSCSFVG 174
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 50/156 (32%), Positives = 76/156 (48%), Gaps = 7/156 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKAV 259
V Y+C + CG ++ L++H H T + CK GC K F L H
Sbjct: 9 VYKRYICSFADCGAAYNKNWKLQAHLCKH-TGEKPFPCKEEGCEKGFTSLHHLTRH-SLT 66
Query: 260 HESTKNFKCTYDGCKLLFSTKSALKRH-NKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHM 318
H KNF C DGC L F+TK+ +K+H N+ ++ + ++ C CGK+F + L+ H
Sbjct: 67 HTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQ 126
Query: 319 LQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
H + P + CP++ C + S L H K VH+
Sbjct: 127 FSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK-VHA 160
Score = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 44/147 (29%), Positives = 66/147 (44%), Gaps = 5/147 (3%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
Y C +C + L+ H+ +H C+E GC + F ++ + H H+
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG-EK 71
Query: 205 PYMCDYKGCGKSFYLMASLKSH-QRVHVTNPEDLVC--KGCGKQFKVPCRLREHYKAVHE 261
+ CD GC F A++K H R H VC + CGK FK +L+ H + H
Sbjct: 72 NFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVH-QFSHT 130
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
++C ++GC FS S LKRH K
Sbjct: 131 QQLPYECPHEGCDKRFSLPSRLKRHEK 157
>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 = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 90/204 (44%), Gaps = 17/204 (8%)
Query: 156 FTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGK 215
F + S++ + G+ C E CG+ F + H + H+ PY C CGK
Sbjct: 4 FGSSSSVAQAALEPGEKPYACPE---CGKSFSRSDHLAEHQRTHTG-EKPYKCPE--CGK 57
Query: 216 SFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKL 275
SF L HQR H T + C CGK F LR H + H K + C C
Sbjct: 58 SFSDKKDLTRHQRTH-TGEKPYKCPECGKSFSQRANLRAHQR-THTGEKPYACPE--CGK 113
Query: 276 LFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDC 335
FS + L+ H ++ H + + CP CGKSF R ++L H H KP + CP +C
Sbjct: 114 SFSQLAHLRAHQRT-HTGEKPYKCP--ECGKSFSREDNLHTHQRTHTGEKP-YKCP--EC 167
Query: 336 LMSYVAKSSLYAHLKHVHSTNKIT 359
S+ + +L H + H+ K +
Sbjct: 168 GKSFSRRDALNVHQR-THTGKKTS 190
Score = 61.2 bits (147), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 53/169 (31%), Positives = 70/169 (41%), Gaps = 12/169 (7%)
Query: 121 CMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEEL 180
C F L H +H +K Y C + C K F+ +L H H C E
Sbjct: 27 CGKSFSRSDHLAEHQRTHTGEKP-YKCPE--CGKSFSDKKDLTRHQRTHTGEKPYKCPE- 82
Query: 181 GCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK 240
CG+ F H + H+ PY C CGKSF +A L++HQR H T + C
Sbjct: 83 -CGKSFSQRANLRAHQRTHTG-EKPYACPE--CGKSFSQLAHLRAHQRTH-TGEKPYKCP 137
Query: 241 GCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKS 289
CGK F L H + H K +KC C FS + AL H ++
Sbjct: 138 ECGKSFSREDNLHTHQR-THTGEKPYKCPE--CGKSFSRRDALNVHQRT 183
>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 = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 62/118 (52%), Gaps = 4/118 (3%)
Query: 208 CDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFK 267
C +KGC K F ++++ H +H P VC CGK F +L+ H + VH K F+
Sbjct: 8 CPHKGCTKMFRDNSAMRKH--LHTHGPRVHVCAECGKAFVESSKLKRH-QLVHTGEKPFQ 64
Query: 268 CTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 325
CT++GC FS L+ H + H R + CP C K F +S +L+ H+L H + K
Sbjct: 65 CTFEGCGKRFSLDFNLRTHVRI-HTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAKAK 121
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 55/117 (47%), Gaps = 6/117 (5%)
Query: 171 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 230
+P T+ C GC + F+ HL H P + CGK+F + LK HQ VH
Sbjct: 2 EPRTIACPHKGCTKMFRDNSAMRKHLHTH----GPRVHVCAECGKAFVESSKLKRHQLVH 57
Query: 231 VTN-PEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRH 286
P +GCGK+F + LR H + +H + + C +DGC F+ + LK H
Sbjct: 58 TGEKPFQCTFEGCGKRFSLDFNLRTHVR-IHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 40/121 (33%), Positives = 57/121 (47%), Gaps = 8/121 (6%)
Query: 147 CDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPY 206
C K C K F S ++ H+ HG + +C E CG+ F + H H+ P+
Sbjct: 8 CPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAE---CGKAFVESSKLKRHQLVHTG-EKPF 63
Query: 207 MCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVC--KGCGKQFKVPCRLREHYKAVHESTK 264
C ++GCGK F L +L++H R+H T VC GC K+F L+ H H K
Sbjct: 64 QCTFEGCGKRFSLDFNLRTHVRIH-TGDRPYVCPFDGCNKKFAQSTNLKSHI-LTHAKAK 121
Query: 265 N 265
N
Sbjct: 122 N 122
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 47/94 (50%), Gaps = 6/94 (6%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ C + GC +F SA+++H + R+ C CGK+F+ S L+ H L H
Sbjct: 4 RTIACPHKGCTKMFRDNSAMRKHLHTH--GPRVHVC--AECGKAFVESSKLKRHQLVHTG 59
Query: 324 NKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 357
KP F C ++ C + +L H++ +H+ ++
Sbjct: 60 EKP-FQCTFEGCGKRFSLDFNLRTHVR-IHTGDR 91
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 37/88 (42%), Gaps = 6/88 (6%)
Query: 84 VNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKK 143
C V + K H L H ++PF+C C F L H+ H D+
Sbjct: 38 AECGKAFVESSKLKRHQLVHTGEKPFQCTFEG-----CGKRFSLDFNLRTHVRIHTGDRP 92
Query: 144 CYPCDQKNCNKRFTTLSNLKMHMVRHGK 171
Y C CNK+F +NLK H++ H K
Sbjct: 93 -YVCPFDGCNKKFAQSTNLKSHILTHAK 119
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 121 CMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEEL 180
C F KL RH H +K + C + C KRF+ NL+ H+ H C
Sbjct: 40 CGKAFVESSKLKRHQLVHTGEKP-FQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFD 98
Query: 181 GCGRKFQTMKQYSTHLKEHS 200
GC +KF +H+ H+
Sbjct: 99 GCNKKFAQSTNLKSHILTHA 118
>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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 59/144 (40%), Gaps = 34/144 (23%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 264
P+MC Y GC K ++ ++ L+ H R H K
Sbjct: 6 PFMCAYPGCNKRYFKLSHLQMHSRKHT------------------------------GEK 35
Query: 265 NFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNEN 324
++C + C+ FS LKRH + +H ++ F C TC + F RS+HL+ H H
Sbjct: 36 PYQCDFKDCERRFSRSDQLKRHQR-RHTGVKPFQC--KTCQRKFSRSDHLKTHTRTHTGE 92
Query: 325 KPKFTCPYQDCLMSYVAKSSLYAH 348
KP F+C + C + L H
Sbjct: 93 KP-FSCRWPSCQKKFARSDELVRH 115
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 52/108 (48%), Gaps = 6/108 (5%)
Query: 141 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHS 200
+K+ + C CNKR+ LS+L+MH +H C+ C R+F Q H + H+
Sbjct: 3 EKRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHT 62
Query: 201 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQF 246
V P+ C K C + F LK+H R H T + C+ C K+F
Sbjct: 63 GV-KPFQC--KTCQRKFSRSDHLKTHTRTH-TGEKPFSCRWPSCQKKF 106
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ F C Y GC + S L+ H++ KH + + C C + F RS+ L+ H +H
Sbjct: 5 RPFMCAYPGCNKRYFKLSHLQMHSR-KHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTG 63
Query: 324 NKPKFTCPYQDCLMSYVAKSSLYAHLK 350
KP F C + C + L H +
Sbjct: 64 VKP-FQC--KTCQRKFSRSDHLKTHTR 87
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 41/106 (38%), Gaps = 8/106 (7%)
Query: 81 CPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 140
C CN L+ ++H KH ++P++C C F +L RH H
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKD-----CERRFSRSDQLKRHQRRHTG 63
Query: 141 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKF 186
K P K C ++F+ +LK H H C C +KF
Sbjct: 64 VK---PFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKF 106
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 43/178 (24%), Positives = 70/178 (39%), Gaps = 37/178 (20%)
Query: 147 CDQKNCNKRFTTLSNLKMHMVR---HGKPLTLCCEELGCGRKFQTMK-QY--STHLKEHS 200
C C++ F + L H+ HG+ C GC R+ + K QY H++ H+
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHT 63
Query: 201 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVH 260
P+ C ++GC KS+ + +LK+H R H
Sbjct: 64 G-EKPHKCTFEGCRKSYSRLENLKTHLRSHT----------------------------- 93
Query: 261 ESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHM 318
K + C ++GC FS S +H H N + + C L C K + L++H+
Sbjct: 94 -GEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHV 150
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 50/114 (43%), Gaps = 9/114 (7%)
Query: 121 CMWG--------FFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKP 172
C WG F +++ L+ HM H +K + C + C K ++ L NLK H+ H
Sbjct: 37 CHWGGCSRELRPFKAQYMLVVHMRRHTGEKP-HKCTFEGCRKSYSRLENLKTHLRSHTGE 95
Query: 173 LTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSH 226
CE GC + F + H + PY+C GC K + +SL+ H
Sbjct: 96 KPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKH 149
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 45/155 (29%), Positives = 67/155 (43%), Gaps = 11/155 (7%)
Query: 208 CDYKGCGKSFYLMASLKSH---QRVHVTNPEDLVC--KGCGKQ---FKVPCRLREHYKAV 259
C + GC + F L H + +H E VC GC ++ FK L H +
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKE-FVCHWGGCSRELRPFKAQYMLVVHMRR- 61
Query: 260 HESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHML 319
H K KCT++GC+ +S LK H +S H + + C C K+F + +H
Sbjct: 62 HTGEKPHKCTFEGCRKSYSRLENLKTHLRS-HTGEKPYMCEHEGCSKAFSNASDRAKHQN 120
Query: 320 QHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
+ + N+ + C C Y SSL H+K VH
Sbjct: 121 RTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVHG 155
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 53/127 (41%), Gaps = 7/127 (5%)
Query: 236 DLVCKGCGKQFKVPCRLREHYKA--VHESTKNFKCTYDGCKL---LFSTKSALKRHNKSK 290
D GC ++F +L H + +H K F C + GC F + L H + +
Sbjct: 3 DCRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMR-R 61
Query: 291 HLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
H + C C KS+ R E+L+ H+ H KP + C ++ C ++ S H
Sbjct: 62 HTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKP-YMCEHEGCSKAFSNASDRAKHQN 120
Query: 351 HVHSTNK 357
HS K
Sbjct: 121 RTHSNEK 127
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 81 CPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 140
C C + L K HL H ++P+ C+ + C F + +H
Sbjct: 70 CTFEGCRKSYSRLENLKTHLRSHTGEKPYMCE-----HEGCSKAFSNASDRAKHQNRTHS 124
Query: 141 DKKCYPCDQKNCNKRFTTLSNLKMHM 166
++K Y C C KR+T S+L+ H+
Sbjct: 125 NEKPYVCKLPGCTKRYTDPSSLRKHV 150
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 51/122 (41%), Gaps = 33/122 (27%)
Query: 200 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 259
+ +A + CDY GCGK++ + LK+H R
Sbjct: 1 GSRTATHTCDYAGCGKTYTKSSHLKAHLRT------------------------------ 30
Query: 260 HESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHML 319
H K + C +DGC F+ L RH + KH R F C C ++F RS+HL HM
Sbjct: 31 HTGEKPYHCDWDGCGWKFARSDELTRHYR-KHTGHRPFQCQ--KCDRAFSRSDHLALHMK 87
Query: 320 QH 321
+H
Sbjct: 88 RH 89
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 2/87 (2%)
Query: 171 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 230
+ T C+ GCG+ + HL+ H+ PY CD+ GCG F L H R H
Sbjct: 3 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTG-EKPYHCDWDGCGWKFARSDELTRHYRKH 61
Query: 231 VTNPEDLVCKGCGKQFKVPCRLREHYK 257
T C+ C + F L H K
Sbjct: 62 -TGHRPFQCQKCDRAFSRSDHLALHMK 87
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 263 TKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHN 322
T C Y GC ++ S LK H ++ H + + C CG F RS+ L H +H
Sbjct: 4 TATHTCDYAGCGKTYTKSSHLKAHLRT-HTGEKPYHCDWDGCGWKFARSDELTRHYRKHT 62
Query: 323 ENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
++P F C Q C ++ L H+K
Sbjct: 63 GHRP-FQC--QKCDRAFSRSDHLALHMK 87
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
+ CD C K +T S+LK H+ H C+ GCG KF + + H ++H+
Sbjct: 7 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG-HR 65
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ C + C ++F L H + H
Sbjct: 66 PFQC--QKCDRAFSRSDHLALHMKRHF 90
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 8/90 (8%)
Query: 80 SCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHD 139
+C C T + K HL H ++P+ C + C W F +L RH H
Sbjct: 8 TCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHC-----DWDGCGWKFARSDELTRHYRKHT 62
Query: 140 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 169
+ P + C++ F+ +L +HM RH
Sbjct: 63 GHR---PFQCQKCDRAFSRSDHLALHMKRH 89
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 131 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 190
L H+ +H +K Y CD C +F L H +H C++ C R F
Sbjct: 24 LKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK--CDRAFSRSD 80
Query: 191 QYSTHLKEH 199
+ H+K H
Sbjct: 81 HLALHMKRH 89
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 50/119 (42%), Gaps = 33/119 (27%)
Query: 203 SAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHES 262
+A + CDY GCGK++ + LK+H R H
Sbjct: 3 TATHTCDYAGCGKTYTKSSHLKAHLRT------------------------------HTG 32
Query: 263 TKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 321
K + C +DGC F+ L RH + KH R F C C ++F RS+HL HM +H
Sbjct: 33 EKPYHCDWDGCGWKFARSDELTRHYR-KHTGHRPFQCQ--KCDRAFSRSDHLALHMKRH 88
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 171 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 230
+ T C+ GCG+ + HL+ H+ PY CD+ GCG F L H R H
Sbjct: 2 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTG-EKPYHCDWDGCGWKFARSDELTRHYRKH 60
Query: 231 VTNPEDLVCKGCGKQF 246
T C+ C + F
Sbjct: 61 -TGHRPFQCQKCDRAF 75
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 263 TKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHN 322
T C Y GC ++ S LK H ++ H + + C CG F RS+ L H +H
Sbjct: 3 TATHTCDYAGCGKTYTKSSHLKAHLRT-HTGEKPYHCDWDGCGWKFARSDELTRHYRKHT 61
Query: 323 ENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
++P F C Q C ++ L H+K
Sbjct: 62 GHRP-FQC--QKCDRAFSRSDHLALHMK 86
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
+ CD C K +T S+LK H+ H C+ GCG KF + + H ++H+
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG-HR 64
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ C + C ++F L H + H
Sbjct: 65 PFQC--QKCDRAFSRSDHLALHMKRHF 89
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 8/96 (8%)
Query: 74 KKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLR 133
K+ +C C T + K HL H ++P+ C + C W F +L R
Sbjct: 1 KRTATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHC-----DWDGCGWKFARSDELTR 55
Query: 134 HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 169
H H + P + C++ F+ +L +HM RH
Sbjct: 56 HYRKHTGHR---PFQCQKCDRAFSRSDHLALHMKRH 88
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 131 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 190
L H+ +H +K Y CD C +F L H +H C++ C R F
Sbjct: 23 LKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK--CDRAFSRSD 79
Query: 191 QYSTHLKEH 199
+ H+K H
Sbjct: 80 HLALHMKRH 88
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 36/64 (56%)
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 321
+ C + GC +FS + L H K +H++ + F CP CGKSF +HL+EHM H
Sbjct: 4 GSSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLH 63
Query: 322 NENK 325
++ +
Sbjct: 64 SDTR 67
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 200 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVC--KGCGKQFKVPCRLREHYK 257
S+ S+ CD+ GCG+ F L H++ + + C CGK F L+EH K
Sbjct: 2 SSGSSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK 61
Query: 258 AVHESTKNFKCTYDG 272
+H T+++ C + G
Sbjct: 62 -LHSDTRDYICEFSG 75
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNV-SAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPE 235
C+ GCGR F + +QY H K++ ++ + C CGKSF LK H ++H ++
Sbjct: 10 CDFPGCGRIF-SNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLH-SDTR 67
Query: 236 DLVCKGCG 243
D +C+ G
Sbjct: 68 DYICEFSG 75
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 146 PCDQKNCNKRFTTLSNLKMHM-VRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
PCD C + F+ L H +H + C E CG+ F K H+K HS+
Sbjct: 9 PCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSDTRD 68
Query: 205 PYMCDYKG 212
Y+C++ G
Sbjct: 69 -YICEFSG 75
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 298 PCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 357
PC CG+ F ++L H + ++ F+CP C S+ K L H+K +HS +
Sbjct: 9 PCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK-LHSDTR 67
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 241 GCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPC 299
GCG+ F L H K H K+F C C F+ K LK H K H + R + C
Sbjct: 14 GCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK-LHSDTRDYIC 71
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 49/117 (41%), Gaps = 33/117 (28%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKN 265
+ CDY GC K + + LK+H R H K
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTHT------------------------------GEKP 45
Query: 266 FKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHN 322
+KCT++GC F+ L RH + KH + F C + C +SF RS+HL HM +H
Sbjct: 46 YKCTWEGCDWRFARSDELTRHYR-KHTGAKPFQCGV--CNRSFSRSDHLALHMKRHQ 99
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 44/104 (42%), Gaps = 8/104 (7%)
Query: 66 SSTGGKNSKKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGF 125
S + G + +K+++ C C + K HL H ++P+KC C W F
Sbjct: 3 SGSSGPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEG-----CDWRF 57
Query: 126 FSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 169
+L RH H K P CN+ F+ +L +HM RH
Sbjct: 58 ARSDELTRHYRKHTGAK---PFQCGVCNRSFSRSDHLALHMKRH 98
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 3/91 (3%)
Query: 140 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 199
E ++ + CD C K +T S+LK H+ H C GC +F + + H ++H
Sbjct: 11 EKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKH 70
Query: 200 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 230
+ P+ C C +SF L H + H
Sbjct: 71 TGAK-PFQCGV--CNRSFSRSDHLALHMKRH 98
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 268 CTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPK 327
C Y GC +++ S LK H ++ H + + C C F RS+ L H +H KP
Sbjct: 18 CDYPGCTKVYTKSSHLKAHLRT-HTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKP- 75
Query: 328 FTCPYQDCLMSYVAKSSLYAHLK 350
F C C S+ L H+K
Sbjct: 76 FQCGV--CNRSFSRSDHLALHMK 96
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R+ C C K + +S HL+ H+ H KP + C ++ C + L H +
Sbjct: 14 RIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYR 68
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 131 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 190
L H+ +H +K Y C + C+ RF L H +H C C R F
Sbjct: 33 LKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGV--CNRSFSRSD 89
Query: 191 QYSTHLKEHSN 201
+ H+K H N
Sbjct: 90 HLALHMKRHQN 100
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 44/150 (29%), Positives = 65/150 (43%), Gaps = 32/150 (21%)
Query: 211 KGCGKSFYLMASLKSHQRV-HVTNPE--DLVCKGCGKQFKVPCRLREHYKAVHESTKNFK 267
K C ++F M L +H + HV PE + VC +++ K+FK
Sbjct: 29 KSCDRTFSTMHELVTHVTMEHVGGPEQNNHVC---------------YWEECPREGKSFK 73
Query: 268 CTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPK 327
Y KL+ + H + FPCP CGK F RSE+L+ H H KP
Sbjct: 74 AKY---KLVNHIRV---------HTGEKPFPCPFPGCGKIFARSENLKIHKRTHTGEKP- 120
Query: 328 FTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 357
F C ++ C + S H+ HVH+++K
Sbjct: 121 FKCEFEGCDRRFANSSDRKKHM-HVHTSDK 149
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 42/98 (42%), Gaps = 10/98 (10%)
Query: 117 NNTPCMW--------GFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVR 168
NN C W F +K+KL+ H+ H +K +PC C K F NLK+H
Sbjct: 56 NNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKP-FPCPFPGCGKIFARSENLKIHKRT 114
Query: 169 HGKPLTLCCEELGCGRKFQTMKQYSTHLKEH-SNVSAP 205
H CE GC R+F H+ H S+ S P
Sbjct: 115 HTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTSDKSGP 152
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 57/148 (38%), Gaps = 44/148 (29%)
Query: 149 QKNCNKRFTTLSNLKMH--MVRHGKP--------LTLCCEELGCGRKFQTMKQYSTHLKE 198
+K+C++ F+T+ L H M G P C E G+ F+ + H++
Sbjct: 28 KKSCDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPRE---GKSFKAKYKLVNHIRV 84
Query: 199 HSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKA 258
H+ P+ C + GCGK F +LK H+R H
Sbjct: 85 HTG-EKPFPCPFPGCGKIFARSENLKIHKRTHT--------------------------- 116
Query: 259 VHESTKNFKCTYDGCKLLFSTKSALKRH 286
K FKC ++GC F+ S K+H
Sbjct: 117 ---GEKPFKCEFEGCDRRFANSSDRKKH 141
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 26/67 (38%), Gaps = 5/67 (7%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ + CP C KIH H ++PFKC+ C F + +HM
Sbjct: 88 EKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEG-----CDRRFANSSDRKKHM 142
Query: 136 TSHDEDK 142
H DK
Sbjct: 143 HVHTSDK 149
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 79 WSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 138
+ C +C + HL KH ++PF CK C GF S H L RH +H
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCK-----EEGCEKGFTSLHHLTRHSLTH 58
Query: 139 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVR 168
+K + CD C+ RFTT +N+K H R
Sbjct: 59 TGEKN-FTCDSDGCDLRFTTKANMKKHFNR 87
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKAVHEST 263
Y+C + CG ++ L++H H T + CK GC K F L H H
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKH-TGEKPFPCKEEGCEKGFTSLHHLTRH-SLTHTGE 61
Query: 264 KNFKCTYDGCKLLFSTKSALKRH 286
KNF C DGC L F+TK+ +K+H
Sbjct: 62 KNFTCDSDGCDLRFTTKANMKKH 84
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 40/91 (43%), Gaps = 2/91 (2%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
K + C++ C ++ L+ H SKH + FPC C K F HL H L H
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAH-LSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG 60
Query: 324 NKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
K FTC C + + K+++ H H+
Sbjct: 61 EK-NFTCDSDGCDLRFTTKANMKKHFNRFHN 90
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 130 KLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM 189
KL H++ H +K +PC ++ C K FT+L +L H + H C+ GC +F T
Sbjct: 20 KLQAHLSKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTK 78
Query: 190 KQYSTHLKEHSNV 202
H N+
Sbjct: 79 ANMKKHFNRFHNI 91
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
Y C +C + L+ H+ +H C+E GC + F ++ + H H+
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG-EK 62
Query: 205 PYMCDYKGCGKSFYLMASLKSH-QRVH 230
+ CD GC F A++K H R H
Sbjct: 63 NFTCDSDGCDLRFTTKANMKKHFNRFH 89
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 43/87 (49%), Gaps = 6/87 (6%)
Query: 239 CKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFP 298
C CGK F L++H + H K +KC C FS S L++H ++ H + +
Sbjct: 7 CPECGKSFSQSSNLQKHQR-THTGEKPYKCPE--CGKSFSQSSDLQKHQRT-HTGEKPYK 62
Query: 299 CPLVTCGKSFLRSEHLQEHMLQHNENK 325
CP CGKSF RS+HL H H K
Sbjct: 63 CP--ECGKSFSRSDHLSRHQRTHQNKK 87
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 8/87 (9%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
K +KC C FS S L++H ++ H + + CP CGKSF +S LQ+H H
Sbjct: 3 KPYKCPE--CGKSFSQSSNLQKHQRT-HTGEKPYKCP--ECGKSFSQSSDLQKHQRTHTG 57
Query: 324 NKPKFTCPYQDCLMSYVAKSSLYAHLK 350
KP + CP +C S+ L H +
Sbjct: 58 EKP-YKCP--ECGKSFSRSDHLSRHQR 81
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 33/79 (41%), Gaps = 5/79 (6%)
Query: 152 CNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYK 211
C K F+ SNL+ H H C E CG+ F H + H+ PY C
Sbjct: 10 CGKSFSQSSNLQKHQRTHTGEKPYKCPE--CGKSFSQSSDLQKHQRTHTG-EKPYKCPE- 65
Query: 212 GCGKSFYLMASLKSHQRVH 230
CGKSF L HQR H
Sbjct: 66 -CGKSFSRSDHLSRHQRTH 83
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 39/96 (40%), Gaps = 12/96 (12%)
Query: 106 KRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
++P+KC C F L +H +H +K Y C + C K F+ S+L+ H
Sbjct: 2 EKPYKCPE-------CGKSFSQSSNLQKHQRTHTGEKP-YKCPE--CGKSFSQSSDLQKH 51
Query: 166 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 201
H C E CG+ F S H + H N
Sbjct: 52 QRTHTGEKPYKCPE--CGKSFSRSDHLSRHQRTHQN 85
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 182 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKG 241
CG+ F+ STHL HS+ + PY C Y CGK F+ + +K H +H T + C+
Sbjct: 7 CGKSFKRSSTLSTHLLIHSD-TRPYPCQY--CGKRFHQKSDMKKHTFIH-TGEKPHKCQV 62
Query: 242 CGKQFKVPCRLREHYK 257
CGK F L H +
Sbjct: 63 CGKAFSQSSNLITHSR 78
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 39/84 (46%), Gaps = 6/84 (7%)
Query: 239 CKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFP 298
CK CGK FK L H +H T+ + C Y C F KS +K+H ++ P
Sbjct: 4 CKICGKSFKRSSTLSTHL-LIHSDTRPYPCQY--CGKRFHQKSDMKKHT---FIHTGEKP 57
Query: 299 CPLVTCGKSFLRSEHLQEHMLQHN 322
CGK+F +S +L H +H
Sbjct: 58 HKCQVCGKAFSQSSNLITHSRKHT 81
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 209 DYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKC 268
D K CGKSF ++L +H +H ++ C+ CGK+F +++H +H K KC
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIH-SDTRPYPCQYCGKRFHQKSDMKKH-TFIHTGEKPHKC 60
Query: 269 TYDGCKLLFSTKSALKRHNK 288
C FS S L H++
Sbjct: 61 QV--CGKAFSQSSNLITHSR 78
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 148 DQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYM 207
D K C K F S L H++ H C+ CG++F H H+ P+
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIHSDTRPYPCQY--CGKRFHQKSDMKKHTFIHTG-EKPHK 59
Query: 208 CDYKGCGKSFYLMASLKSHQRVHV 231
C CGK+F ++L +H R H
Sbjct: 60 CQV--CGKAFSQSSNLITHSRKHT 81
Score = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 297 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 348
F C + CGKSF RS L H+L H++ +P P Q C + KS + H
Sbjct: 2 FDCKI--CGKSFKRSSTLSTHLLIHSDTRPY---PCQYCGKRFHQKSDMKKH 48
Score = 31.6 bits (70), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 10/76 (13%)
Query: 94 NTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCN 153
+T HLL H D RP+ C+ C F K + +H H +K P + C
Sbjct: 15 STLSTHLLIHSDTRPYPCQY-------CGKRFHQKSDMKKHTFIHTGEK---PHKCQVCG 64
Query: 154 KRFTTLSNLKMHMVRH 169
K F+ SNL H +H
Sbjct: 65 KAFSQSSNLITHSRKH 80
>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 = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP-- 234
C CG+ F+ Q H H+ PY C ++GC K F L + LK H++VH P
Sbjct: 4 CHFENCGKAFKKHNQLKVHQFSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCK 62
Query: 235 EDLVCKGCGKQF 246
+D C GK +
Sbjct: 63 KDDSCSFVGKTW 74
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK--AVHES 262
Y+C ++ CGK+F LK HQ H P + +GC K+F +P RL+ H K A +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPC 61
Query: 263 TKNFKCTYDG 272
K+ C++ G
Sbjct: 62 KKDDSCSFVG 71
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
Y C +NC K F + LK+H H + L C GC ++F + LK H V A
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSL----PSRLKRHEKVHA 57
Query: 205 PYMC 208
Y C
Sbjct: 58 GYPC 61
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 296 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
M+ C CGK+F + L+ H H + P + CP++ C + S L H K VH+
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK-VHA 57
Score = 32.0 bits (71), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 240 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNK 288
+ CGK FK +L+ H + H ++C ++GC FS S LKRH K
Sbjct: 7 ENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 126 FSKHKLLR-HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH-GKPLTLCCEELGCG 183
F KH L+ H SH + Y C + C+KRF+ S LK H H G P C ++ C
Sbjct: 13 FKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEKVHAGYP---CKKDDSCS 68
Query: 184 RKFQTMKQYSTHLKE 198
+T Y H+ E
Sbjct: 69 FVGKTWTLYLKHVAE 83
>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 = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP-- 234
C CG+ F+ Q H H+ PY C ++GC K F L + LK H++VH P
Sbjct: 4 CHFENCGKAFKKHNQLKVHQFSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCK 62
Query: 235 EDLVCKGCGKQF 246
+D C GK +
Sbjct: 63 KDDSCSFVGKTW 74
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK--AVHES 262
Y+C ++ CGK+F LK HQ H P + +GC K+F +P RL+ H K A +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPC 61
Query: 263 TKNFKCTYDG 272
K+ C++ G
Sbjct: 62 KKDDSCSFVG 71
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
Y C +NC K F + LK+H H + L C GC ++F + LK H V A
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSL----PSRLKRHEKVHA 57
Query: 205 PYMC 208
Y C
Sbjct: 58 GYPC 61
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 296 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
M+ C CGK+F + L+ H H + P + CP++ C + S L H K VH+
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK-VHA 57
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 240 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNK 288
+ CGK FK +L+ H + H ++C ++GC FS S LKRH K
Sbjct: 7 ENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 126 FSKHKLLR-HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH-MVRHGKPLTLCCEELGCG 183
F KH L+ H SH + Y C + C+KRF+ S LK H V G P C ++ C
Sbjct: 13 FKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEKVHAGYP---CKKDDSCS 68
Query: 184 RKFQTMKQYSTHLKE 198
+T Y H+ E
Sbjct: 69 FVGKTWTLYLKHVAE 83
>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 = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
Y C ++C++RF+ ++L H+ H C C R F +TH++ H+
Sbjct: 5 YACPVESCDRRFSRSADLTRHIRIHTGQKPFQCR--ICMRNFSRSDHLTTHIRTHTG-EK 61
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ CD CG+ F K H ++H+
Sbjct: 62 PFACDI--CGRKFARSDERKRHTKIHL 86
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 4/87 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 261
+ PY C + C + F A L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSADLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS + L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSADLTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 324 NKPKFTC 330
KP F C
Sbjct: 60 EKP-FAC 65
Score = 34.7 bits (78), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 40/90 (44%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F RS L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSADLTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 145 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 204
Y C ++C++RF+ + L H+ H C C R F +TH++ H+
Sbjct: 5 YACPVESCDRRFSRSAELTRHIRIHTGQKPFQCR--ICMRNFSRSDHLTTHIRTHTG-EK 61
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ CD CG+ F K H ++H+
Sbjct: 62 PFACDI--CGRKFARSDERKRHTKIHL 86
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 4/87 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 261
+ PY C + C + F A L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSAELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS + L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSAELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 324 NKPKFTC 330
KP F C
Sbjct: 60 EKP-FAC 65
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 40/90 (44%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F RS L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSAELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
Length = 90
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 264
PY C + C + F +L +H R+H T + C+ C + F L H + H K
Sbjct: 4 PYACPVESCDRRFSQKTNLDTHIRIH-TGQKPFQCRICMRNFSQQASLNAHIR-THTGEK 61
Query: 265 NFKCTYDGCKLLFSTKSALKRHNK 288
F C D C F+T RH K
Sbjct: 62 PFAC--DICGRKFATLHTRTRHTK 83
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 236
C C R+F TH++ H+ P+ C + C ++F ASL +H R H T +
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTG-QKPFQC--RICMRNFSQQASLNAHIRTH-TGEKP 62
Query: 237 LVCKGCGKQF 246
C CG++F
Sbjct: 63 FACDICGRKF 72
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ H+ H ++PF+C++ CM F + L H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI-------CMRNFSQQASLNAHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F TL H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFATLHTRTRH 81
Score = 34.3 bits (77), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F + +L H+ H KP F C + C+ ++ ++SL AH++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQC--RICMRNFSQQASLNAHIR 55
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 4/87 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 261
+ PY C + C + F SL H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSQSGSLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS +L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSQSGSLTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 324 NKPKFTC 330
KP F C
Sbjct: 60 EKP-FAC 65
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F +S L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSQSGSLTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 261
+ PY C + C + F +L +H R+H T + C+ C + F L +H + H
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIH-TGQKPFQCRICMRNFSQHTGLNQHIR-THT 58
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
K F C D C F+T RH K
Sbjct: 59 GEKPFAC--DICGRKFATLHTRDRHTK 83
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ H+ H ++PF+C++ CM F L +H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI-------CMRNFSQHTGLNQHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F TL H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFATLHTRDRH 81
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 4/70 (5%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 236
C C R+F TH++ H+ P+ C + C ++F L H R H T +
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTG-QKPFQC--RICMRNFSQHTGLNQHIRTH-TGEKP 62
Query: 237 LVCKGCGKQF 246
C CG++F
Sbjct: 63 FACDICGRKF 72
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F + +L H+ H KP F C + C+ ++ + L H++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQC--RICMRNFSQHTGLNQHIR 55
>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 = 0.011, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 4/87 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 261
+ PY C + C + F ++L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSDSSNLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS S L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSDSSNLTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 324 NKPKFTC 330
KP F C
Sbjct: 60 EKP-FAC 65
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ + + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACDI--CGRKFARSDERKRH 81
Score = 31.2 bits (69), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F S +L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSDSSNLTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 240 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPC 299
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSDSSNLTRHIR-IHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 300 PLVTCGKSFLRSEHLQEHMLQHNENK 325
+ CG+ F RS+ + H H K
Sbjct: 66 DI--CGRKFARSDERKRHTKIHLRQK 89
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 35/82 (42%), Gaps = 8/82 (9%)
Query: 182 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH---VTNPEDLV 238
CG+ F+ + + H HS PY C CG F + H R H V P +
Sbjct: 13 CGKIFRDVYHLNRHKLSHSG-EKPYSCPV--CGLRFKRKDRMSYHVRSHDGSVGKP--YI 67
Query: 239 CKGCGKQFKVPCRLREHYKAVH 260
C+ CGK F P L H K VH
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQVH 89
Score = 36.2 bits (82), Expect = 0.028, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 37/84 (44%), Gaps = 4/84 (4%)
Query: 237 LVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRM 296
+ C+ CGK F+ L H K H K + C C L F K + H +S H
Sbjct: 8 VACEICGKIFRDVYHLNRH-KLSHSGEKPYSCPV--CGLRFKRKDRMSYHVRS-HDGSVG 63
Query: 297 FPCPLVTCGKSFLRSEHLQEHMLQ 320
P +CGK F R +HL H+ Q
Sbjct: 64 KPYICQSCGKGFSRPDHLNGHIKQ 87
Score = 29.3 bits (64), Expect = 3.9, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 304 CGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
CGK F HL H L H+ KP ++CP C + + K + H++
Sbjct: 13 CGKIFRDVYHLNRHKLSHSGEKP-YSCPV--CGLRFKRKDRMSYHVR 56
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 294 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
+R C CGK++ +S HL+ H H KP F+C ++ C + L H +
Sbjct: 15 IRSHICSHPGCGKTYFKSSHLKAHTRTHTGEKP-FSCSWKGCERRFARSDELSRHRR 70
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK 257
++C + GCGK+++ + LK+H R H P KGC ++F L H +
Sbjct: 18 HICSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRR 70
Score = 35.0 bits (79), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 230
C GCG+ + H + H+ P+ C +KGC + F L H+R H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTG-EKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 268 CTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 321
C++ GC + S LK H ++ H + F C C + F RS+ L H H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRT-HTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 21/53 (39%)
Query: 147 CDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 199
C C K + S+LK H H C GC R+F + S H + H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
>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 = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 202 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 261
+ PY C + C + F L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 262 STKNFKCTYDGCKLLFSTKSALKRHNK 288
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 324 NKPKFTC 330
KP F C
Sbjct: 60 EKP-FAC 65
Score = 35.8 bits (81), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 240 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPC 299
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSRSDELTRHIR-IHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 300 PLVTCGKSFLRSEHLQEHMLQHNENK 325
+ CG+ F RS+ + H H K
Sbjct: 66 DI--CGRKFARSDERKRHTKIHLRQK 89
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 264
PY C + C + F L H R+H T + C+ C + F L H + H K
Sbjct: 3 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THTGEK 60
Query: 265 NFKCTYDGCKLLFSTKSALKRHNK 288
F C D C F+ KRH K
Sbjct: 61 PFAC--DICGRKFARSDERKRHTK 82
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 2 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 58
Query: 324 NKPKFTC 330
KP F C
Sbjct: 59 EKP-FAC 64
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 53
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 54 RTHTGEKP-FACD--ICGRKFARSDERKRH 80
Score = 34.7 bits (78), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 2 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 54
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 240 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPC 299
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 9 ESCDRRFSRSDELTRHIR-IHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-HTGEKPFAC 64
Query: 300 PLVTCGKSFLRSEHLQEHMLQH 321
+ CG+ F RS+ + H H
Sbjct: 65 DI--CGRKFARSDERKRHTKIH 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 = 0.021, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 264
PY C + C + F L H R+H T + C+ C + F L H + H K
Sbjct: 4 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THTGEK 61
Query: 265 NFKCTYDGCKLLFSTKSALKRHNK 288
F C D C F+ KRH K
Sbjct: 62 PFAC--DICGRKFARSDERKRHTK 83
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 324 NKPKFTC 330
KP F C
Sbjct: 60 EKP-FAC 65
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 76 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 135
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 34.7 bits (78), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 240 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPC 299
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSRSDELTRHIR-IHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 300 PLVTCGKSFLRSEHLQEHMLQH 321
+ CG+ F RS+ + H H
Sbjct: 66 DI--CGRKFARSDERKRHTKIH 85
>pdb|2EME|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
725- 757) Of Human Zinc Finger Protein 473
Length = 46
Score = 36.2 bits (82), Expect = 0.028, Method: Composition-based stats.
Identities = 16/26 (61%), Positives = 19/26 (73%), Gaps = 2/26 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
PY+CDY CGK+F L A L HQR+H
Sbjct: 12 PYVCDY--CGKAFGLSAELVRHQRIH 35
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 264
PY CD C SF +L SH+ VH T + C CG QF P L+ H + +H K
Sbjct: 17 PYKCDR--CQASFRYKGNLASHKTVH-TGEKPYRCNICGAQFNRPANLKTHTR-IHSGEK 72
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 187 QTMKQYSTHLKEHSNV---SAPYMCDYKGCGKSFYLMASLKSHQRVH 230
Q +Y +L H V PY C+ CG F A+LK+H R+H
Sbjct: 24 QASFRYKGNLASHKTVHTGEKPYRCNI--CGAQFNRPANLKTHTRIH 68
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
K +KC D C+ F K L H K+ H + + C + CG F R +L+ H H+
Sbjct: 16 KPYKC--DRCQASFRYKGNLASH-KTVHTGEKPYRCNI--CGAQFNRPANLKTHTRIHSG 70
Query: 324 NKP 326
KP
Sbjct: 71 EKP 73
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
Length = 73
Score = 35.0 bits (79), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 294 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 350
MR + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 17 MRPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 70
Score = 31.2 bits (69), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 321
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTH 72
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 75 KQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRH 134
K + ++CP+ +C+ + H+ H ++PF+C++ CM F L H
Sbjct: 16 KMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTH 68
Query: 135 MTSH 138
+ +H
Sbjct: 69 IRTH 72
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQF 246
PY C + C + F L H R+H T + C+ C + F
Sbjct: 19 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNF 59
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 35.0 bits (79), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 177 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTN 233
C+E CG+ F S H + H+ PY CD CGK+F + L H RVH +
Sbjct: 21 CDE--CGKSFSHSSDLSKHRRTHTG-EKPYKCDE--CGKAFIQRSHLIGHHRVHTGS 72
Score = 31.2 bits (69), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
+ +KC D C FS S L +H ++ H + + C CGK+F++ HL H H
Sbjct: 17 RRYKC--DECGKSFSHSSDLSKHRRT-HTGEKPYKCD--ECGKAFIQRSHLIGHHRVHTG 71
Query: 324 NKP 326
+ P
Sbjct: 72 SGP 74
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQF 246
Y CD CGKSF + L H+R H T + C CGK F
Sbjct: 19 YKCDE--CGKSFSHSSDLSKHRRTH-TGEKPYKCDECGKAF 56
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
R + C CGKSF S L +H H KP + C +C +++ +S L H + VH+
Sbjct: 17 RRYKCD--ECGKSFSHSSDLSKHRRTHTGEKP-YKC--DECGKAFIQRSHLIGHHR-VHT 70
Query: 355 TN 356
+
Sbjct: 71 GS 72
>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 = 34.7 bits (78), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 86 CNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDED 141
C++ + + ++ HL H D+RPFKC++ C + + +L H+ SH D
Sbjct: 42 CDYAAADSSSLNKHLRIHSDERPFKCQI-------CPYASRNSSQLTVHLRSHTGD 90
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 200 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 259
S S P+ C+ CGK F LK+H R H T + CK C L +H + +
Sbjct: 3 SGSSGPHKCEV--CGKCFSRKDKLKTHMRCH-TGVKPYKCKTCDYAAADSSSLNKHLR-I 58
Query: 260 HESTKNFKC 268
H + FKC
Sbjct: 59 HSDERPFKC 67
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 304 CGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 357
CGK F R + L+ HM H KP + C + C + SSL HL+ +HS +
Sbjct: 14 CGKCFSRKDKLKTHMRCHTGVKP-YKC--KTCDYAAADSSSLNKHLR-IHSDER 63
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 34.3 bits (77), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 36/91 (39%), Gaps = 8/91 (8%)
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH 195
+S K YPC C K FT S HM H C CG+KF+ H
Sbjct: 2 SSGSSGDKLYPC---QCGKSFTHKSQRDRHMSMHLGLRPYGCGV--CGKKFKMKHHLVGH 56
Query: 196 LKEHSNVSAPYMCDYKGCGKSFYLMASLKSH 226
+K H+ + PY C+ C K F S H
Sbjct: 57 MKIHTGIK-PYECNI--CAKRFMWRDSFHRH 84
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 273 CKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPY 332
C F+ KS RH S HL +R + C + CGK F HL HM H KP + C
Sbjct: 15 CGKSFTHKSQRDRH-MSMHLGLRPYGCGV--CGKKFKMKHHLVGHMKIHTGIKP-YEC-- 68
Query: 333 QDCLMSYVAKSSLYAHL 349
C ++ + S + H+
Sbjct: 69 NICAKRFMWRDSFHRHV 85
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 182 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKG 241
CG+ F Q H+ H + PY C CGK F + L H ++H T + C
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLR-PYGCGV--CGKKFKMKHHLVGHMKIH-TGIKPYECNI 70
Query: 242 CGKQF 246
C K+F
Sbjct: 71 CAKRF 75
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 213 CGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDG 272
CGKSF + H +H+ C CGK+FK+ L H K +H K ++C
Sbjct: 15 CGKSFTHKSQRDRHMSMHL-GLRPYGCGVCGKKFKMKHHLVGHMK-IHTGIKPYECNI-- 70
Query: 273 CKLLFSTKSALKRH 286
C F + + RH
Sbjct: 71 CAKRFMWRDSFHRH 84
>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 = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 49/112 (43%), Gaps = 14/112 (12%)
Query: 96 FKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH--DEDKKCYPCDQKNCN 153
K+H KH ++PF+C C +F K LL H + + ++ + C C
Sbjct: 23 LKVHNRKHTGEKPFEC-------PKCGKCYFRKENLLEHEARNCMNRSEQVFTCSV--CQ 73
Query: 154 KRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH-LKEHSNVSA 204
+ F L++HMV H + C C ++F K +H +K HS S+
Sbjct: 74 ETFRRRMELRLHMVSHTGEMPYKCS--SCSQQFMQKKDLQSHMIKLHSGPSS 123
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 7/79 (8%)
Query: 273 CKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH--NENKPKFTC 330
C F +K LK HN+ KH + F CP CGK + R E+L EH ++ N ++ FTC
Sbjct: 13 CHKKFLSKYYLKVHNR-KHTGEKPFECP--KCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 331 PYQDCLMSYVAKSSLYAHL 349
C ++ + L H+
Sbjct: 70 SV--CQETFRRRMELRLHM 86
>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 = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 238 VCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSK 290
+C+ CG + K P L++H + H + + CTY C F TK L +H KSK
Sbjct: 3 ICEECGIRXKKPSMLKKHIR-THTDVRPYHCTY--CNFSFKTKGNLTKHMKSK 52
>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 = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 44/88 (50%), Gaps = 8/88 (9%)
Query: 261 ESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQ 320
++ K F C + C F+ L H ++ H + R + C + C K+F R +HL++H
Sbjct: 13 KTKKEFICKF--CGRHFTKSYNLLIHERT-HTDERPYTCDI--CHKAFRRQDHLRDHRYI 67
Query: 321 HNENKPKFTCPYQDCLMSYVAKSSLYAH 348
H++ KP F C Q+C + +L H
Sbjct: 68 HSKEKP-FKC--QECGKGFCQSRTLAVH 92
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Query: 200 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 259
S ++C + CG+ F +L H+R H T+ C C K F+ LR+H + +
Sbjct: 12 SKTKKEFICKF--CGRHFTKSYNLLIHERTH-TDERPYTCDICHKAFRRQDHLRDH-RYI 67
Query: 260 HESTKNFKCTYDG 272
H K FKC G
Sbjct: 68 HSKEKPFKCQECG 80
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 43/100 (43%), Gaps = 12/100 (12%)
Query: 106 KRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
K+ F CK C F + LL H +H D++ Y CD C+K F +L+ H
Sbjct: 15 KKEFICKF-------CGRHFTKSYNLLIHERTHT-DERPYTCD--ICHKAFRRQDHLRDH 64
Query: 166 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAP 205
H K C+E CG+ F + + H H S+P
Sbjct: 65 RYIHSKEKPFKCQE--CGKGFCQSRTLAVHKTLHMQTSSP 102
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 298 PCPLVTCGKSFLRSEHLQEHMLQ-HNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 354
P C F +S ++ H+LQ H EN KF CP+ D +++ KS L HL+ HS
Sbjct: 15 PYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIA--RKSDLGVHLRKQHS 70
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 182 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP 234
CG+ F H + H+ PY C CGK+F + L +HQR+H + P
Sbjct: 20 CGKAFSRSSILVQHQRVHTG-EKPYKCLE--CGKAFSQNSGLINHQRIHTSGP 69
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 298 PCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTN 356
P V CGK+F RS L +H H KP + C +C ++ S L H + +H++
Sbjct: 14 PYGCVECGKAFSRSSILVQHQRVHTGEKP-YKC--LECGKAFSQNSGLINHQR-IHTSG 68
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 303 TCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTN 356
C ++F R EHL+ H H KP P C ++ + L H + +HS N
Sbjct: 7 VCTRAFARQEHLKRHYRSHTNEKPY---PCGLCNRAFTRRDLLIRHAQKIHSGN 57
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 32.0 bits (71), Expect = 0.50, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 238 VCKGCGKQFKVPCRLREHYKAVHESTKNFKC 268
+C+ CGK F P L H K VH S + KC
Sbjct: 14 ICQSCGKGFSRPDHLNGHIKQVHTSERPHKC 44
>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 = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 39/89 (43%), Gaps = 6/89 (6%)
Query: 238 VCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMF 297
+C C + + LR H+ +H K + C Y C+ +F +H + H R +
Sbjct: 24 ICIVCKRSYVCLTSLRRHFN-IHSWEKKYPCRY--CEKVFPLAEYRTKH-EIHHTGERRY 79
Query: 298 PCPLVTCGKSFLRSEHLQEHMLQHNENKP 326
C + CGKSF+ + + H+ + P
Sbjct: 80 QC--LACGKSFINYQFMSSHIKSVHSQDP 106
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 42/108 (38%), Gaps = 7/108 (6%)
Query: 153 NKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKG 212
NKR + ++ G+ +C + C R + + H HS Y C Y
Sbjct: 2 NKRMKVKHDDHYELIVDGRVYYIC---IVCKRSYVCLTSLRRHFNIHS-WEKKYPCRY-- 55
Query: 213 CGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVH 260
C K F L A ++ +H T C CGK F + H K+VH
Sbjct: 56 CEKVFPL-AEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSHIKSVH 102
>pdb|2EMP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
536- 568) Of Human Zinc Finger Protein 347
Length = 46
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 19/26 (73%), Gaps = 2/26 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
PYMC+ CGK+F + +SL +HQ +H
Sbjct: 12 PYMCNE--CGKAFSVYSSLTTHQVIH 35
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY C CGK+F A+L HQR+H
Sbjct: 12 PYRCGE--CGKAFAQKANLTQHQRIHT 36
>pdb|1SP2|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f2, Minimized Average Structure
pdb|1VA2|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna Binding
Domain (Zinc Finger 2)
Length = 31
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+MC + CGK F L+ H+R H
Sbjct: 2 PFMCTWSYCGKRFTRSDELQRHKRTHT 28
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 15/31 (48%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 325
R F C CGK F RS+ LQ H H K
Sbjct: 1 RPFMCTWSYCGKRFTRSDELQRHKRTHTGEK 31
>pdb|3S9D|B Chain B, Binary Complex Between Ifna2 And Ifnar2
pdb|3S9D|D Chain D, Binary Complex Between Ifna2 And Ifnar2
Length = 199
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 12/86 (13%)
Query: 205 PYMCDYKGCGKSF--YLMASLKSHQRVH---------VTNPEDL-VCKGCGKQFKVPCRL 252
P C +K ++F L LK+H V ++ PEDL V K C + C L
Sbjct: 3 PESCTFKISLRNFRSILSWELKNHSIVPTHYTLLYTIMSKPEDLKVVKNCANTTRSFCDL 62
Query: 253 REHYKAVHESTKNFKCTYDGCKLLFS 278
+ +++ HE+ + G LFS
Sbjct: 63 TDEWRSTHEAYVTVLEGFSGNTTLFS 88
>pdb|2EOZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
809- 841) Of Human Zinc Finger Protein 473
Length = 46
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
PY C+ CGK+F L A L H RVH
Sbjct: 12 PYSCNV--CGKAFVLSAHLNQHLRVH 35
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 4/58 (6%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHES 262
P+ C++ CGK++ + L H+R H+ C CGK F+ + H K VH++
Sbjct: 4 PFFCNF--CGKTYRDASGLSRHRRAHLGY-RPRSCPECGKCFRDQSEVNRHLK-VHQN 57
>pdb|2EQ2|A Chain A, Solution Structure Of The 16th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY C+ CGK+F + L HQRVH
Sbjct: 12 PYQCNE--CGKAFSQTSKLARHQRVHT 36
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY C+ CGK+F + +SL +HQ +H
Sbjct: 12 PYECNQ--CGKAFSVRSSLTTHQAIHT 36
>pdb|1ZNM|A Chain A, A Zinc Finger With An Artificial Beta-Turn, Original
Sequence Taken From The Third Zinc Finger Domain Of The
Human Transcriptional Repressor Protein Yy1 (Ying And
Yang 1, A Delta Transcription Factor), Nmr, 34
Structures
Length = 28
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
P+ C + CGK F L +LK+H ++H
Sbjct: 1 PFQCTFXCCGKRFSLDFNLKTHVKIH 26
>pdb|2LVT|A Chain A, Solution Structure Of Miz-1 Zinc Finger 9
Length = 29
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 298 PCPLVTCGKSFLRSEHLQEHMLQHNENK 325
PC V CGK+F ++ L H+ QH K
Sbjct: 2 PCQCVMCGKAFTQASSLIAHVRQHTGEK 29
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHVTN 233
PY C K CGKSF SL H+R+H +
Sbjct: 10 PYQC--KECGKSFSQRGSLAVHERLHTGS 36
>pdb|2ENH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
556- 588) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
PY CD C K+F ASL HQRVH
Sbjct: 12 PYECDV--CRKAFSHHASLTQHQRVH 35
>pdb|2EPU|A Chain A, Solution Structure Of The Secound C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 45
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ C + CGKSF +L +HQR+H
Sbjct: 12 PFECTH--CGKSFRAKGNLVTHQRIHT 36
>pdb|2YTR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
760- 792) Of Human Zinc Finger Protein 347
Length = 46
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY C+ CGK+F + L HQR+H
Sbjct: 12 PYKCNE--CGKAFSQTSKLARHQRIHT 36
>pdb|2EN0|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
385- 413) Of Human Zinc Finger Protein 268
Length = 42
Score = 28.9 bits (63), Expect = 5.2, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 200 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 230
S+ PY+C+ CGK+F L + L H+R+H
Sbjct: 5 SSGQKPYVCNE--CGKAFGLKSQLIIHERIH 33
>pdb|2EOR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
255- 287) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY C+ CGK+F + L+ HQR+H
Sbjct: 12 PYNCEE--CGKAFIHDSQLQEHQRIHT 36
>pdb|2EM9|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
367- 399) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
PY C K CGKSF + L HQRVH
Sbjct: 12 PYNC--KECGKSFRWASCLLKHQRVH 35
>pdb|1RIK|A Chain A, E6-Binding Zinc Finger (E6apc1)
Length = 29
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 297 FPCPLVTCGKSFLRSEHLQEHMLQHNENK 325
F CP C K F+RS+HL H+L H K
Sbjct: 3 FACP--ECPKRFMRSDHLTLHILLHENKK 29
>pdb|2YTS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
715- 747) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY+C+ CGKSF + L H+R+H
Sbjct: 12 PYICNE--CGKSFIQKSHLNRHRRIHT 36
>pdb|2EP0|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
528- 560) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY CD C KSF +SL HQR+H
Sbjct: 12 PYKCDV--CHKSFRYGSSLTVHQRIHT 36
>pdb|1ZFD|A Chain A, Swi5 Zinc Finger Domain 2, Nmr, 45 Structures
Length = 32
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVH 230
PY CD+ GC K+F L H++ H
Sbjct: 3 PYSCDHPGCDKAFVRNHDLIRHKKSH 28
>pdb|2EN1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
563- 595) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ C+ CGK F + L SHQRVH
Sbjct: 12 PFKCEE--CGKRFTQNSQLHSHQRVHT 36
>pdb|2YTJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
771- 803) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
PY+C CGK+F + ++L HQ++H
Sbjct: 12 PYICAE--CGKAFTIRSNLIKHQKIHT 36
>pdb|2ENT|A Chain A, Solution Structure Of The Second C2h2-Type Zinc Finger
Domain From Human Krueppel-Like Factor 15
Length = 48
Score = 28.1 bits (61), Expect = 7.6, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKS 289
K F CT+ GC FS L RH +S
Sbjct: 11 KPFACTWPGCGWRFSRSDELSRHRRS 36
>pdb|2YTH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
479- 511) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 205 PYMCDYKGCGKSFYLMASLKSHQRVHV 231
P+ C+ CGK F + L SHQRVH
Sbjct: 12 PFQCEE--CGKRFTQNSHLHSHQRVHT 36
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 206 YMCDYKGCGKSFYLMASLKSHQRVHV 231
Y CD CGK F + L++HQRVH
Sbjct: 13 YKCDV--CGKEFSQSSHLQTHQRVHT 36
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 303 TCGKSFLRSEHLQEHMLQHNENKP 326
CGK F +S HLQ H H KP
Sbjct: 17 VCGKEFSQSSHLQTHQRVHTGEKP 40
>pdb|1VA3|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna Binding
Domain (Zinc Finger 3)
pdb|1SP1|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f3, Minimized Average Structure
Length = 29
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 295 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 325
+ F CP C K F+RS+HL +H+ H K
Sbjct: 1 KKFACP--ECPKRFMRSDHLSKHIKTHQNKK 29
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.133 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,869,449
Number of Sequences: 62578
Number of extensions: 437793
Number of successful extensions: 1525
Number of sequences better than 100.0: 94
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 1091
Number of HSP's gapped (non-prelim): 344
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)