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= psy11068
(292 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 = 80.5 bits (197), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 57/174 (32%), Positives = 80/174 (45%), Gaps = 11/174 (6%)
Query: 57 WSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 116
+ C +C + HL KH ++PF CK C GF S H L RH +H
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCK-----EEGCEKGFTSLHHLTRHSLTH 67
Query: 117 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVR--HGKPLTLCCEELGCGRKFQTMKQYSTHL 174
+K + CD C+ RFTT +N+K H R + K C CG+ F+ Q H
Sbjct: 68 TGEKN-FTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQ 126
Query: 175 KEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP--EDLVCKGCGKQFKV 226
H+ PY C ++GC K F L + LK H++VH P +D C GK + +
Sbjct: 127 FSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCKKDDSCSFVGKTWTL 179
Score = 70.9 bits (172), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 47/147 (31%), Positives = 71/147 (48%), Gaps = 5/147 (3%)
Query: 108 KLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM 167
KL H+ H +K +PC ++ C K FT+L +L H + H C+ GC +F T
Sbjct: 29 KLQAHLCKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTK 87
Query: 168 KQYSTHLKEHSNVSA-PYMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFK 225
H N+ Y+C ++ CGK+F LK HQ H P + +GC K+F
Sbjct: 88 ANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFS 147
Query: 226 VPCRLREHYK--AVHESTKNFKCTYDG 250
+P RL+ H K A + K+ C++ G
Sbjct: 148 LPSRLKRHEKVHAGYPCKKDDSCSFVG 174
Score = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 44/147 (29%), Positives = 66/147 (44%), Gaps = 5/147 (3%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
Y C +C + L+ H+ +H C+E GC + F ++ + H H+
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG-EK 71
Query: 183 PYMCDYKGCGKSFYLMASLKSH-QRVHVTNPEDLVC--KGCGKQFKVPCRLREHYKAVHE 239
+ CD GC F A++K H R H VC + CGK FK +L+ H + H
Sbjct: 72 NFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVH-QFSHT 130
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
++C ++GC FS S LKRH K
Sbjct: 131 QQLPYECPHEGCDKRFSLPSRLKRHEK 157
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 55/110 (50%), Gaps = 5/110 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKAV 237
V Y+C + CG ++ L++H H T + CK GC K F L H
Sbjct: 9 VYKRYICSFADCGAAYNKNWKLQAHLCKH-TGEKPFPCKEEGCEKGFTSLHHLTRH-SLT 66
Query: 238 HESTKNFKCTYDGCKLLFSTKSALKRH-NKSKHLNMRMFPCPLVTCGKSF 286
H KNF C DGC L F+TK+ +K+H N+ ++ + ++ C CGK+F
Sbjct: 67 HTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAF 116
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 73/153 (47%), Gaps = 10/153 (6%)
Query: 125 CDQKNCNKRFTTLSNLKMHMVR---HGKPLTLCCEELGCGRKFQTMK-QY--STHLKEHS 178
C C++ F + L H+ HG+ C GC R+ + K QY H++ H+
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHT 63
Query: 179 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKA 236
P+ C ++GC KS+ + +LK+H R H T + +C+ GC K F +H
Sbjct: 64 G-EKPHKCTFEGCRKSYSRLENLKTHLRSH-TGEKPYMCEHEGCSKAFSNASDRAKHQNR 121
Query: 237 VHESTKNFKCTYDGCKLLFSTKSALKRHNKSKH 269
H + K + C GC ++ S+L++H K+ H
Sbjct: 122 THSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 50/114 (43%), Gaps = 9/114 (7%)
Query: 99 CMWG--------FFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKP 150
C WG F +++ L+ HM H +K + C + C K ++ L NLK H+ H
Sbjct: 37 CHWGGCSRELRPFKAQYMLVVHMRRHTGEKP-HKCTFEGCRKSYSRLENLKTHLRSHTGE 95
Query: 151 LTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSH 204
CE GC + F + H + PY+C GC K + +SL+ H
Sbjct: 96 KPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKH 149
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 59 CPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 118
C C + L K HL H ++P+ C+ + C F + +H
Sbjct: 70 CTFEGCRKSYSRLENLKTHLRSHTGEKPYMCE-----HEGCSKAFSNASDRAKHQNRTHS 124
Query: 119 DKKCYPCDQKNCNKRFTTLSNLKMHM 144
++K Y C C KR+T S+L+ H+
Sbjct: 125 NEKPYVCKLPGCTKRYTDPSSLRKHV 150
>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 = 60.8 bits (146), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 53/169 (31%), Positives = 70/169 (41%), Gaps = 12/169 (7%)
Query: 99 CMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEEL 158
C F L H +H +K Y C + C K F+ +L H H C E
Sbjct: 27 CGKSFSRSDHLAEHQRTHTGEKP-YKCPE--CGKSFSDKKDLTRHQRTHTGEKPYKCPE- 82
Query: 159 GCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK 218
CG+ F H + H+ PY C CGKSF +A L++HQR H T + C
Sbjct: 83 -CGKSFSQRANLRAHQRTHTG-EKPYACPE--CGKSFSQLAHLRAHQRTH-TGEKPYKCP 137
Query: 219 GCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKS 267
CGK F L H + H K +KC C FS + AL H ++
Sbjct: 138 ECGKSFSREDNLHTHQR-THTGEKPYKCPE--CGKSFSRRDALNVHQRT 183
Score = 54.3 bits (129), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 44/156 (28%), Positives = 65/156 (41%), Gaps = 17/156 (10%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ + CP +F+ + H H ++P+KC C F + L H
Sbjct: 47 EKPYKCPECGKSFS--DKKDLTRHQRTHTGEKPYKCPE-------CGKSFSQRANLRAHQ 97
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH 173
+H +K Y C + C K F+ L++L+ H H C E CG+ F TH
Sbjct: 98 RTHTGEKP-YACPE--CGKSFSQLAHLRAHQRTHTGEKPYKCPE--CGKSFSREDNLHTH 152
Query: 174 LKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHV 209
+ H+ PY C CGKSF +L HQR H
Sbjct: 153 QRTHTG-EKPYKCPE--CGKSFSRRDALNVHQRTHT 185
>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 = 60.8 bits (146), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 55/117 (47%), Gaps = 6/117 (5%)
Query: 149 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 208
+P T+ C GC + F+ HL H P + CGK+F + LK HQ VH
Sbjct: 2 EPRTIACPHKGCTKMFRDNSAMRKHLHTH----GPRVHVCAECGKAFVESSKLKRHQLVH 57
Query: 209 VTN-PEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRH 264
P +GCGK+F + LR H + +H + + C +DGC F+ + LK H
Sbjct: 58 TGEKPFQCTFEGCGKRFSLDFNLRTHVR-IHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 59/127 (46%), Gaps = 8/127 (6%)
Query: 119 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHS 178
+ + C K C K F S ++ H+ HG + +C E CG+ F + H H+
Sbjct: 2 EPRTIACPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAE---CGKAFVESSKLKRHQLVHT 58
Query: 179 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVC--KGCGKQFKVPCRLREHYKA 236
P+ C ++GCGK F L +L++H R+H T VC GC K+F L+ H
Sbjct: 59 G-EKPFQCTFEGCGKRFSLDFNLRTHVRIH-TGDRPYVCPFDGCNKKFAQSTNLKSHI-L 115
Query: 237 VHESTKN 243
H KN
Sbjct: 116 THAKAKN 122
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 36/104 (34%), Positives = 52/104 (50%), Gaps = 4/104 (3%)
Query: 186 CDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFK 245
C +KGC K F ++++ H +H P VC CGK F +L+ H + VH K F+
Sbjct: 8 CPHKGCTKMFRDNSAMRKH--LHTHGPRVHVCAECGKAFVESSKLKRH-QLVHTGEKPFQ 64
Query: 246 CTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLST 289
CT++GC FS L+ H + H R + CP C K F +
Sbjct: 65 CTFEGCGKRFSLDFNLRTHVRI-HTGDRPYVCPFDGCNKKFAQS 107
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 37/88 (42%), Gaps = 6/88 (6%)
Query: 62 VNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKK 121
C V + K H L H ++PF+C C F L H+ H D+
Sbjct: 38 AECGKAFVESSKLKRHQLVHTGEKPFQCTFEG-----CGKRFSLDFNLRTHVRIHTGDRP 92
Query: 122 CYPCDQKNCNKRFTTLSNLKMHMVRHGK 149
Y C CNK+F +NLK H++ H K
Sbjct: 93 -YVCPFDGCNKKFAQSTNLKSHILTHAK 119
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 99 CMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEEL 158
C F KL RH H +K + C + C KRF+ NL+ H+ H C
Sbjct: 40 CGKAFVESSKLKRHQLVHTGEKP-FQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFD 98
Query: 159 GCGRKFQTMKQYSTHLKEHS 178
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 = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 52/111 (46%), Gaps = 3/111 (2%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 214
C GC +++ + H ++H+ PY CD+K C + F LK HQR H T +
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTG-EKPYQCDFKDCERRFSRSDQLKRHQRRH-TGVKP 66
Query: 215 LVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHN 265
CK C ++F L+ H + H K F C + C+ F+ L RH+
Sbjct: 67 FQCKTCQRKFSRSDHLKTHTR-THTGEKPFSCRWPSCQKKFARSDELVRHH 116
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 51/126 (40%), Gaps = 9/126 (7%)
Query: 83 DKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKM 142
+KRPF C N +F L H H +K Y CD K+C +RF+ LK
Sbjct: 3 EKRPFMCAYPGCNKR-----YFKLSHLQMHSRKHTGEKP-YQCDFKDCERRFSRSDQLKR 56
Query: 143 HMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLK 202
H RH C+ C RKF TH + H+ P+ C + C K F L
Sbjct: 57 HQRRHTGVKPFQCK--TCQRKFSRSDHLKTHTRTHTG-EKPFSCRWPSCQKKFARSDELV 113
Query: 203 SHQRVH 208
H +H
Sbjct: 114 RHHNMH 119
Score = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 55/118 (46%), Gaps = 6/118 (5%)
Query: 119 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHS 178
+K+ + C CNKR+ LS+L+MH +H C+ C R+F Q H + H+
Sbjct: 3 EKRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHT 62
Query: 179 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHY 234
V P+ C K C + F LK+H R H T + C+ C K+F L H+
Sbjct: 63 GV-KPFQC--KTCQRKFSRSDHLKTHTRTH-TGEKPFSCRWPSCQKKFARSDELVRHH 116
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 41/104 (39%), Gaps = 33/104 (31%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 242
P+MC Y GC K ++ ++ L+ H R H K
Sbjct: 6 PFMCAYPGCNKRYFKLSHLQMHSRKHT------------------------------GEK 35
Query: 243 NFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSF 286
++C + C+ FS LKRH + +H ++ F C TC + F
Sbjct: 36 PYQCDFKDCERRFSRSDQLKRHQR-RHTGVKPFQC--KTCQRKF 76
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 44/119 (36%), Gaps = 8/119 (6%)
Query: 59 CPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 118
C CN L+ ++H KH ++P++C C F +L RH H
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKD-----CERRFSRSDQLKRHQRRHTG 63
Query: 119 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 177
K P K C ++F+ +LK H H C C +KF + H H
Sbjct: 64 VK---PFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRHHNMH 119
>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 = 5e-07, Method: Compositional matrix adjust.
Identities = 43/115 (37%), Positives = 56/115 (48%), Gaps = 14/115 (12%)
Query: 160 CGRKFQTMKQYSTHLK-EHSNVSAP----YMCDYKGC---GKSFYLMASLKSHQRVHVTN 211
C R F TM + TH+ EH V P ++C ++ C GKSF L +H RVH T
Sbjct: 31 CDRTFSTMHELVTHVTMEH--VGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRVH-TG 87
Query: 212 PEDLVCK--GCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRH 264
+ C GCGK F L+ H K H K FKC ++GC F+ S K+H
Sbjct: 88 EKPFPCPFPGCGKIFARSENLKIH-KRTHTGEKPFKCEFEGCDRRFANSSDRKKH 141
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 42/98 (42%), Gaps = 10/98 (10%)
Query: 95 NNTPCMW--------GFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVR 146
NN C W F +K+KL+ H+ H +K +PC C K F NLK+H
Sbjct: 56 NNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKP-FPCPFPGCGKIFARSENLKIHKRT 114
Query: 147 HGKPLTLCCEELGCGRKFQTMKQYSTHLKEH-SNVSAP 183
H CE GC R+F H+ H S+ S P
Sbjct: 115 HTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTSDKSGP 152
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 49/111 (44%), Gaps = 10/111 (9%)
Query: 189 KGCGKSFYLMASLKSHQRV-HVTNPED-------LVCKGCGKQFKVPCRLREHYKAVHES 240
K C ++F M L +H + HV PE C GK FK +L H + VH
Sbjct: 29 KSCDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIR-VHTG 87
Query: 241 TKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLSTQE 291
K F C + GC +F+ LK H ++ H + F C C + F ++ +
Sbjct: 88 EKPFPCPFPGCGKIFARSENLKIHKRT-HTGEKPFKCEFEGCDRRFANSSD 137
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 26/67 (38%), Gaps = 5/67 (7%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ + CP C KIH H ++PFKC+ C F + +HM
Sbjct: 88 EKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEG-----CDRRFANSSDRKKHM 142
Query: 114 TSHDEDK 120
H DK
Sbjct: 143 HVHTSDK 149
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 57 WSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 116
+ C +C + HL KH ++PF CK C GF S H L RH +H
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCK-----EEGCEKGFTSLHHLTRHSLTH 58
Query: 117 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVR 146
+K + CD C+ RFTT +N+K H R
Sbjct: 59 TGEKN-FTCDSDGCDLRFTTKANMKKHFNR 87
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKAVHEST 241
Y+C + CG ++ L++H H T + CK GC K F L H H
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKH-TGEKPFPCKEEGCEKGFTSLHHLTRH-SLTHTGE 61
Query: 242 KNFKCTYDGCKLLFSTKSALKRH 264
KNF C DGC L F+TK+ +K+H
Sbjct: 62 KNFTCDSDGCDLRFTTKANMKKH 84
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 108 KLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM 167
KL H++ H +K +PC ++ C K FT+L +L H + H C+ GC +F T
Sbjct: 20 KLQAHLSKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTK 78
Query: 168 KQYSTHLKEHSNV 180
H N+
Sbjct: 79 ANMKKHFNRFHNI 91
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
Y C +C + L+ H+ +H C+E GC + F ++ + H H+
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG-EK 62
Query: 183 PYMCDYKGCGKSFYLMASLKSH-QRVH 208
+ CD GC F A++K H R H
Sbjct: 63 NFTCDSDGCDLRFTTKANMKKHFNRFH 89
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 2/87 (2%)
Query: 149 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 208
+ T C+ GCG+ + HL+ H+ PY CD+ GCG F L H R H
Sbjct: 2 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTG-EKPYHCDWDGCGWKFARSDELTRHYRKH 60
Query: 209 VTNPEDLVCKGCGKQFKVPCRLREHYK 235
T C+ C + F L H K
Sbjct: 61 -TGHRPFQCQKCDRAFSRSDHLALHMK 86
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 40/87 (45%), Gaps = 4/87 (4%)
Query: 181 SAPYMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+A + CDY GCGK++ + LK+H R H P GCG +F L HY+ H
Sbjct: 3 TATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK-HT 61
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
+ F+C C FS L H K
Sbjct: 62 GHRPFQC--QKCDRAFSRSDHLALHMK 86
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
+ CD C K +T S+LK H+ H C+ GCG KF + + H ++H+
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG-HR 64
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ C + C ++F L H + H
Sbjct: 65 PFQC--QKCDRAFSRSDHLALHMKRHF 89
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 8/96 (8%)
Query: 52 KKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLR 111
K+ +C C T + K HL H ++P+ C + C W F +L R
Sbjct: 1 KRTATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHC-----DWDGCGWKFARSDELTR 55
Query: 112 HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 147
H H + P + C++ F+ +L +HM RH
Sbjct: 56 HYRKHTGHR---PFQCQKCDRAFSRSDHLALHMKRH 88
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 109 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 168
L H+ +H +K Y CD C +F L H +H C++ C R F
Sbjct: 23 LKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK--CDRAFSRSD 79
Query: 169 QYSTHLKEH 177
+ H+K H
Sbjct: 80 HLALHMKRH 88
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 2/87 (2%)
Query: 149 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 208
+ T C+ GCG+ + HL+ H+ PY CD+ GCG F L H R H
Sbjct: 3 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTG-EKPYHCDWDGCGWKFARSDELTRHYRKH 61
Query: 209 VTNPEDLVCKGCGKQFKVPCRLREHYK 235
T C+ C + F L H K
Sbjct: 62 -TGHRPFQCQKCDRAFSRSDHLALHMK 87
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 40/87 (45%), Gaps = 4/87 (4%)
Query: 181 SAPYMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+A + CDY GCGK++ + LK+H R H P GCG +F L HY+ H
Sbjct: 4 TATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK-HT 62
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
+ F+C C FS L H K
Sbjct: 63 GHRPFQC--QKCDRAFSRSDHLALHMK 87
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
+ CD C K +T S+LK H+ H C+ GCG KF + + H ++H+
Sbjct: 7 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG-HR 65
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ C + C ++F L H + H
Sbjct: 66 PFQC--QKCDRAFSRSDHLALHMKRHF 90
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 8/90 (8%)
Query: 58 SCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHD 117
+C C T + K HL H ++P+ C + C W F +L RH H
Sbjct: 8 TCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHC-----DWDGCGWKFARSDELTRHYRKHT 62
Query: 118 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 147
+ P + C++ F+ +L +HM RH
Sbjct: 63 GHR---PFQCQKCDRAFSRSDHLALHMKRH 89
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 109 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 168
L H+ +H +K Y CD C +F L H +H C++ C R F
Sbjct: 24 LKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK--CDRAFSRSD 80
Query: 169 QYSTHLKEH 177
+ H+K H
Sbjct: 81 HLALHMKRH 89
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 44/104 (42%), Gaps = 8/104 (7%)
Query: 44 SSTGGKNSKKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGF 103
S + G + +K+++ C C + K HL H ++P+KC C W F
Sbjct: 3 SGSSGPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEG-----CDWRF 57
Query: 104 FSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 147
+L RH H K P CN+ F+ +L +HM RH
Sbjct: 58 ARSDELTRHYRKHTGAK---PFQCGVCNRSFSRSDHLALHMKRH 98
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 118 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 177
E ++ + CD C K +T S+LK H+ H C GC +F + + H ++H
Sbjct: 11 EKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKH 70
Query: 178 SNVSAPYMCDYKGCGKSF----YLMASLKSHQ 205
+ P+ C C +SF +L +K HQ
Sbjct: 71 TGAK-PFQCGV--CNRSFSRSDHLALHMKRHQ 99
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 40/103 (38%), Gaps = 33/103 (32%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKN 243
+ CDY GC K + + LK+H R H K
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTHT------------------------------GEKP 45
Query: 244 FKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSF 286
+KCT++GC F+ L RH + KH + F C + C +SF
Sbjct: 46 YKCTWEGCDWRFARSDELTRHYR-KHTGAKPFQCGV--CNRSF 85
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 109 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 168
L H+ +H +K Y C + C+ RF L H +H C C R F
Sbjct: 33 LKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGV--CNRSFSRSD 89
Query: 169 QYSTHLKEHSN 179
+ H+K H N
Sbjct: 90 HLALHMKRHQN 100
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 45/94 (47%), Gaps = 7/94 (7%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C CGKSF ++L+ HQR H T + C CGK F L++H + H
Sbjct: 1 MEKPYKCPE--CGKSFSQSSNLQKHQRTH-TGEKPYKCPECGKSFSQSSDLQKHQR-THT 56
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMR 273
K +KC C FS L RH ++ H N +
Sbjct: 57 GEKPYKCPE--CGKSFSRSDHLSRHQRT-HQNKK 87
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 120 KKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 179
+K Y C + C K F+ SNL+ H H C E CG+ F H + H+
Sbjct: 2 EKPYKCPE--CGKSFSQSSNLQKHQRTHTGEKPYKCPE--CGKSFSQSSDLQKHQRTHTG 57
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVH 208
PY C CGKSF L HQR H
Sbjct: 58 -EKPYKCPE--CGKSFSRSDHLSRHQRTH 83
Score = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 39/96 (40%), Gaps = 12/96 (12%)
Query: 84 KRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
++P+KC C F L +H +H +K Y C + C K F+ S+L+ H
Sbjct: 2 EKPYKC-------PECGKSFSQSSNLQKHQRTHTGEKP-YKCPE--CGKSFSQSSDLQKH 51
Query: 144 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 179
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 = 2e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 160 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKG 219
CG+ F+ STHL HS+ + PY C Y CGK F+ + +K H +H T + C+
Sbjct: 7 CGKSFKRSSTLSTHLLIHSD-TRPYPCQY--CGKRFHQKSDMKKHTFIH-TGEKPHKCQV 62
Query: 220 CGKQFKVPCRLREHYK 235
CGK F L H +
Sbjct: 63 CGKAFSQSSNLITHSR 78
Score = 34.3 bits (77), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 187 DYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKC 246
D K CGKSF ++L +H +H ++ C+ CGK+F +++H +H K KC
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIH-SDTRPYPCQYCGKRFHQKSDMKKH-TFIHTGEKPHKC 60
Query: 247 TYDGCKLLFSTKSALKRHNK 266
C FS S L H++
Sbjct: 61 QV--CGKAFSQSSNLITHSR 78
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 126 DQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYM 185
D K C K F S L H++ H C+ CG++F H H+ P+
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIHSDTRPYPCQY--CGKRFHQKSDMKKHTFIHTG-EKPHK 59
Query: 186 CDYKGCGKSFYLMASLKSHQRVHV 209
C CGK+F ++L +H R H
Sbjct: 60 CQV--CGKAFSQSSNLITHSRKHT 81
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 10/76 (13%)
Query: 72 NTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCN 131
+T HLL H D RP+ C+ C F K + +H H +K P + C
Sbjct: 15 STLSTHLLIHSDTRPYPCQY-------CGKRFHQKSDMKKHTFIHTGEK---PHKCQVCG 64
Query: 132 KRFTTLSNLKMHMVRH 147
K F+ SNL H +H
Sbjct: 65 KAFSQSSNLITHSRKH 80
>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 = 4e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
Y C ++C++RF+ ++L H+ H C C R F +TH++ H+
Sbjct: 5 YACPVESCDRRFSRSADLTRHIRIHTGQKPFQCR--ICMRNFSRSDHLTTHIRTHTG-EK 61
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ CD CG+ F K H ++H+
Sbjct: 62 PFACDI--CGRKFARSDERKRHTKIHL 86
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 4/87 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F A L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSADLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 40/90 (44%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSF 286
+ C + GC +FS + L H K +H++ + F CP CGKSF
Sbjct: 4 GSSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSF 50
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 178 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVC--KGCGKQFKVPCRLREHYK 235
S+ S+ CD+ GCG+ F L H++ + + C CGK F L+EH K
Sbjct: 2 SSGSSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK 61
Query: 236 AVHESTKNFKCTYDG 250
+H T+++ C + G
Sbjct: 62 -LHSDTRDYICEFSG 75
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNV-SAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPE 213
C+ GCGR F +QY H K++ ++ + C CGKSF LK H ++H ++
Sbjct: 10 CDFPGCGRIFSN-RQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLH-SDTR 67
Query: 214 DLVCKGCG 221
D +C+ G
Sbjct: 68 DYICEFSG 75
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 124 PCDQKNCNKRFTTLSNLKMHM-VRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
PCD C + F+ L H +H + C E CG+ F K H+K HS+
Sbjct: 9 PCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSDTRD 68
Query: 183 PYMCDYKG 190
Y+C++ G
Sbjct: 69 -YICEFSG 75
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 219 GCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPC 277
GCG+ F L H K H K+F C C F+ K LK H K H + R + C
Sbjct: 14 GCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK-LHSDTRDYIC 71
>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 = 4e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP-- 212
C CG+ F+ Q H H+ PY C ++GC K F L + LK H++VH P
Sbjct: 4 CHFENCGKAFKKHNQLKVHQFSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCK 62
Query: 213 EDLVCKGCGKQFKV 226
+D C GK + +
Sbjct: 63 KDDSCSFVGKTWTL 76
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK--AVHES 240
Y+C ++ CGK+F LK HQ H P + +GC K+F +P RL+ H K A +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPC 61
Query: 241 TKNFKCTYDG 250
K+ C++ G
Sbjct: 62 KKDDSCSFVG 71
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
Y C +NC K F + LK+H H + L C GC ++F + LK H V A
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSL----PSRLKRHEKVHA 57
Query: 183 PYMC 186
Y C
Sbjct: 58 GYPC 61
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 218 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNK 266
+ CGK FK +L+ H + H ++C ++GC FS S LKRH K
Sbjct: 7 ENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 104 FSKHKLLR-HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH-GKPLTLCCEELGCG 161
F KH L+ H SH + Y C + C+KRF+ S LK H H G P C ++ C
Sbjct: 13 FKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEKVHAGYP---CKKDDSCS 68
Query: 162 RKFQTMKQYSTHLKE 176
+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 = 4e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP-- 212
C CG+ F+ Q H H+ PY C ++GC K F L + LK H++VH P
Sbjct: 4 CHFENCGKAFKKHNQLKVHQFSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCK 62
Query: 213 EDLVCKGCGKQFKV 226
+D C GK + +
Sbjct: 63 KDDSCSFVGKTWTL 76
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK--AVHES 240
Y+C ++ CGK+F LK HQ H P + +GC K+F +P RL+ H K A +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPC 61
Query: 241 TKNFKCTYDG 250
K+ C++ G
Sbjct: 62 KKDDSCSFVG 71
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
Y C +NC K F + LK+H H + L C GC ++F + LK H V A
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSL----PSRLKRHEKVHA 57
Query: 183 PYMC 186
Y C
Sbjct: 58 GYPC 61
Score = 32.0 bits (71), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 218 KGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNK 266
+ CGK FK +L+ H + H ++C ++GC FS S LKRH K
Sbjct: 7 ENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 104 FSKHKLLR-HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH-GKPLTLCCEELGCG 161
F KH L+ H SH + Y C + C+KRF+ S LK H H G P C ++ C
Sbjct: 13 FKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEKVHAGYP---CKKDDSCS 68
Query: 162 RKFQTMKQYSTHLKE 176
+T Y H+ E
Sbjct: 69 FVGKTWTLYLKHVAE 83
>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 = 6e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 182
Y C ++C++RF+ + L H+ H C C R F +TH++ H+
Sbjct: 5 YACPVESCDRRFSRSAELTRHIRIHTGQKPFQCR--ICMRNFSRSDHLTTHIRTHTG-EK 61
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ CD CG+ F K H ++H+
Sbjct: 62 PFACDI--CGRKFARSDERKRHTKIHL 86
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 4/87 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F A L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSAELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 34.7 bits (78), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 40/90 (44%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 4/87 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F +L +H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIH-TGQKPFQCRICMRNFSQQASLNAHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+T RH K
Sbjct: 59 GEKPFAC--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: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 214
C C R+F TH++ H+ P+ C + C ++F ASL +H R H T +
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTG-QKPFQC--RICMRNFSQQASLNAHIRTH-TGEKP 62
Query: 215 LVCKGCGKQF 224
C CG++F
Sbjct: 63 FACDICGRKF 72
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 43/94 (45%), Gaps = 10/94 (10%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ H+ H ++PF+C++ CM F + L H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI-------CMRNFSQQASLNAHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 147
+H +K + CD C ++F TL H H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFATLHTRTRHTKIH 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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F +L +H R+H T + C+ C + F L +H + H
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIH-TGQKPFQCRICMRNFSQHTGLNQHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+T RH K
Sbjct: 59 GEKPFAC--DICGRKFATLHTRDRHTK 83
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ H+ H ++PF+C++ CM F L +H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI-------CMRNFSQHTGLNQHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F TL H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFATLHTRDRH 81
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 5/89 (5%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 214
C C R+F TH++ H+ P+ C + C ++F L H R H T +
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTG-QKPFQC--RICMRNFSQHTGLNQHIRTH-TGEKP 62
Query: 215 LVCKGCGKQFKVPCRLREHYKAVHESTKN 243
C CG++F R+ + +H K+
Sbjct: 63 FACDICGRKFAT-LHTRDRHTKIHLRQKD 90
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
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: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F SL H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSQSGSLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
>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 = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 4/87 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F ++L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSDSSNLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ + + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACDI--CGRKFARSDERKRH 81
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 239
+ PY C + C + F L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 240 STKNFKCTYDGCKLLFSTKSALKRHNK 266
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
>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 = 0.016, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 242
PY C + C + F L H R+H T + C+ C + F L H + H K
Sbjct: 3 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THTGEK 60
Query: 243 NFKCTYDGCKLLFSTKSALKRHNK 266
F C D C F+ KRH K
Sbjct: 61 PFAC--DICGRKFARSDERKRHTK 82
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 53
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 54 RTHTGEKP-FACD--ICGRKFARSDERKRH 80
>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 = 0.017, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 242
PY C + C + F L H R+H T + C+ C + F L H + H K
Sbjct: 4 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THTGEK 61
Query: 243 NFKCTYDGCKLLFSTKSALKRHNK 266
F C D C F+ KRH K
Sbjct: 62 PFAC--DICGRKFARSDERKRHTK 83
Score = 35.4 bits (80), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 54 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM 113
++ ++CP+ +C+ + H+ H ++PF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 35/84 (41%), Gaps = 8/84 (9%)
Query: 160 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH---VTNPEDLV 216
CG+ F+ + + H HS PY C CG F + H R H V P +
Sbjct: 13 CGKIFRDVYHLNRHKLSHSG-EKPYSCPV--CGLRFKRKDRMSYHVRSHDGSVGKP--YI 67
Query: 217 CKGCGKQFKVPCRLREHYKAVHES 240
C+ CGK F P L H K VH
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQVHSG 91
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 242
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 = 3.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 165 QTMKQYSTHLKEHSNV---SAPYMCDYKGCGKSFYLMASLKSHQRVH 208
Q +Y +L H V PY C+ CG F A+LK+H R+H
Sbjct: 24 QASFRYKGNLASHKTVHTGEKPYRCNI--CGAQFNRPANLKTHTRIH 68
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK 235
++C + GCGK+++ + LK+H R H P KGC ++F L H +
Sbjct: 18 HICSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRR 70
Score = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 208
C GCG+ + H + H+ P+ C +KGC + F L H+R H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTG-EKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 30.8 bits (68), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 23/57 (40%)
Query: 121 KCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 177
+ + C C K + S+LK H H C GC R+F + S H + H
Sbjct: 16 RSHICSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
>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 = 35.4 bits (80), Expect = 0.039, Method: Composition-based stats.
Identities = 16/26 (61%), Positives = 19/26 (73%), Gaps = 2/26 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
PY+CDY CGK+F L A L HQR+H
Sbjct: 12 PYVCDY--CGKAFGLSAELVRHQRIH 35
>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 = 35.0 bits (79), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 64 CNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDED 119
C++ + + ++ HL H D+RPFKC++ C + + +L H+ SH D
Sbjct: 42 CDYAAADSSSLNKHLRIHSDERPFKCQI-------CPYASRNSSQLTVHLRSHTGD 90
Score = 30.8 bits (68), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 178 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 237
S S P+ C+ CGK F LK+H R H T + CK C L +H + +
Sbjct: 3 SGSSGPHKCEV--CGKCFSRKDKLKTHMRCH-TGVKPYKCKTCDYAAADSSSLNKHLR-I 58
Query: 238 HESTKNFKC 246
H + FKC
Sbjct: 59 HSDERPFKC 67
>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 = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 54/127 (42%), Gaps = 16/127 (12%)
Query: 59 CPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH-- 116
CP + F S K+H KH ++PF+C C +F K LL H +
Sbjct: 10 CPTCHKKFLSKYY--LKVHNRKHTGEKPFEC-------PKCGKCYFRKENLLEHEARNCM 60
Query: 117 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH-LK 175
+ ++ + C C + F L++HMV H + C C ++F K +H +K
Sbjct: 61 NRSEQVFTCSV--CQETFRRRMELRLHMVSHTGEMPYKCS--SCSQQFMQKKDLQSHMIK 116
Query: 176 EHSNVSA 182
HS S+
Sbjct: 117 LHSGPSS 123
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 34.7 bits (78), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 155 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHV 209
C+E CG+ F S H + H+ PY CD CGK+F + L H RVH
Sbjct: 21 CDE--CGKSFSHSSDLSKHRRTHTG-EKPYKCDE--CGKAFIQRSHLIGHHRVHT 70
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKA 236
Y CD CGKSF + L H+R H T + C CGK F L H++
Sbjct: 19 YKCDE--CGKSFSHSSDLSKHRRTH-TGEKPYKCDECGKAFIQRSHLIGHHRV 68
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 34.7 bits (78), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 36/91 (39%), Gaps = 8/91 (8%)
Query: 114 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH 173
+S K YPC C K FT S HM H C CG+KF+ H
Sbjct: 2 SSGSSGDKLYPC---QCGKSFTHKSQRDRHMSMHLGLRPYGCGV--CGKKFKMKHHLVGH 56
Query: 174 LKEHSNVSAPYMCDYKGCGKSFYLMASLKSH 204
+K H+ + PY C+ C K F S H
Sbjct: 57 MKIHTGIK-PYECNI--CAKRFMWRDSFHRH 84
Score = 30.8 bits (68), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 160 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKG 219
CG+ F Q H+ H + PY C CGK F + L H ++H T + C
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLR-PYGCGV--CGKKFKMKHHLVGHMKIH-TGIKPYECNI 70
Query: 220 CGKQF 224
C K+F
Sbjct: 71 CAKRF 75
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 191 CGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDG 250
CGKSF + H +H+ C CGK+FK+ L H K +H K ++C
Sbjct: 15 CGKSFTHKSQRDRHMSMHL-GLRPYGCGVCGKKFKMKHHLVGHMK-IHTGIKPYECNI-- 70
Query: 251 CKLLFSTKSALKRH 264
C F + + RH
Sbjct: 71 CAKRFMWRDSFHRH 84
>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 = 0.11, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 216 VCKGCGKQFKVPCRLREHYKAVHESTKNFKCTYDGCKLLFSTKSALKRHNKSK 268
+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 = 0.14, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 178 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 237
S ++C + CG+ F +L H+R H T+ C C K F+ LR+H + +
Sbjct: 12 SKTKKEFICKF--CGRHFTKSYNLLIHERTH-TDERPYTCDICHKAFRRQDHLRDH-RYI 67
Query: 238 HESTKNFKC 246
H K FKC
Sbjct: 68 HSKEKPFKC 76
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 43/100 (43%), Gaps = 12/100 (12%)
Query: 84 KRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 143
K+ F CK C F + LL H +H D++ Y CD C+K F +L+ H
Sbjct: 15 KKEFICKF-------CGRHFTKSYNLLIHERTHT-DERPYTCD--ICHKAFRRQDHLRDH 64
Query: 144 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAP 183
H K C+E CG+ F + + H H S+P
Sbjct: 65 RYIHSKEKPFKCQE--CGKGFCQSRTLAVHKTLHMQTSSP 102
>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 = 0.21, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 160 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP 212
CG+ F H + H+ PY C CGK+F + L +HQR+H + P
Sbjct: 20 CGKAFSRSSILVQHQRVHTG-EKPYKCLE--CGKAFSQNSGLINHQRIHTSGP 69
>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 = 0.77, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 46/111 (41%), Gaps = 13/111 (11%)
Query: 131 NKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA---PYMCD 187
NKR + ++ G+ +C + C R + + T L+ H N+ + Y C
Sbjct: 2 NKRMKVKHDDHYELIVDGRVYYIC---IVCKRSYVCL----TSLRRHFNIHSWEKKYPCR 54
Query: 188 YKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVH 238
Y C K F L A ++ +H T C CGK F + H K+VH
Sbjct: 55 Y--CEKVFPL-AEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSHIKSVH 102
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 216 VCKGCGKQFKVPCRLREHYKAVHESTKNFKC 246
+C+ CGK F P L H K VH S + KC
Sbjct: 14 ICQSCGKGFSRPDHLNGHIKQVHTSERPHKC 44
>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 = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 19/26 (73%), Gaps = 2/26 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
PYMC+ CGK+F + +SL +HQ +H
Sbjct: 12 PYMCNE--CGKAFSVYSSLTTHQVIH 35
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
Length = 73
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 53 KQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRH 112
K + ++CP+ +C+ + H+ H ++PF+C++ CM F L H
Sbjct: 16 KMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTH 68
Query: 113 MTSH 116
+ +H
Sbjct: 69 IRTH 72
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQF 224
PY C + C + F L H R+H T + C+ C + F
Sbjct: 19 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNF 59
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 123 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHS 178
Y C ++C++RF+ L H+ H C C R F +TH++ H+
Sbjct: 20 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCR--ICMRNFSRSDHLTTHIRTHT 73
>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 = 2.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 12/88 (13%)
Query: 181 SAPYMCDYKGCGKSF--YLMASLKSHQRVH---------VTNPEDL-VCKGCGKQFKVPC 228
+ P C +K ++F L LK+H V ++ PEDL V K C + C
Sbjct: 1 ADPESCTFKISLRNFRSILSWELKNHSIVPTHYTLLYTIMSKPEDLKVVKNCANTTRSFC 60
Query: 229 RLREHYKAVHESTKNFKCTYDGCKLLFS 256
L + +++ HE+ + G LFS
Sbjct: 61 DLTDEWRSTHEAYVTVLEGFSGNTTLFS 88
>pdb|2ENT|A Chain A, Solution Structure Of The Second C2h2-Type Zinc Finger
Domain From Human Krueppel-Like Factor 15
Length = 48
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 242 KNFKCTYDGCKLLFSTKSALKRHNKS 267
K F CT+ GC FS L RH +S
Sbjct: 11 KPFACTWPGCGWRFSRSDELSRHRRS 36
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY C CGK+F A+L HQR+H
Sbjct: 12 PYRCGE--CGKAFAQKANLTQHQRIHT 36
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
PY C+ CGK+F L A L H RVH
Sbjct: 12 PYSCNV--CGKAFVLSAHLNQHLRVH 35
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+MC + CGK F L+ H+R H
Sbjct: 2 PFMCTWSYCGKRFTRSDELQRHKRTHT 28
>pdb|2EMJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
612- 644) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ C CGKSF + + L +HQR+H
Sbjct: 12 PFECAE--CGKSFSISSQLATHQRIHT 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 = 2.4, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
PY CD C K+F ASL HQRVH
Sbjct: 12 PYECDV--CRKAFSHHASLTQHQRVH 35
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY C+ CGK+F + +SL +HQ +H
Sbjct: 12 PYECNQ--CGKAFSVRSSLTTHQAIHT 36
>pdb|2EQ2|A Chain A, Solution Structure Of The 16th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY C+ CGK+F + L HQRVH
Sbjct: 12 PYQCNE--CGKAFSQTSKLARHQRVHT 36
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 4/58 (6%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHES 240
P+ C++ CGK++ + L H+R H+ C CGK F+ + H K VH++
Sbjct: 4 PFFCNF--CGKTYRDASGLSRHRRAHLGY-RPRSCPECGKCFRDQSEVNRHLK-VHQN 57
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
P+ C + CGK F L +LK+H ++H
Sbjct: 1 PFQCTFXCCGKRFSLDFNLKTHVKIH 26
>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 = 3.0, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHVTN 211
PY C K CGKSF SL H+R+H +
Sbjct: 10 PYQC--KECGKSFSQRGSLAVHERLHTGS 36
>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 = 3.8, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ C + CGKSF +L +HQR+H
Sbjct: 12 PFECTH--CGKSFRAKGNLVTHQRIHT 36
>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 = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY C+ CGK+F + L+ HQR+H
Sbjct: 12 PYNCEE--CGKAFIHDSQLQEHQRIHT 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 = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY C+ CGK+F + L HQR+H
Sbjct: 12 PYKCNE--CGKAFSQTSKLARHQRIHT 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 = 4.9, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY CD C KSF +SL HQR+H
Sbjct: 12 PYKCDV--CHKSFRYGSSLTVHQRIHT 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 = 4.9, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
PY C K CGKSF + L HQRVH
Sbjct: 12 PYNC--KECGKSFRWASCLLKHQRVH 35
>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 = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY+C+ CGKSF + L H+R+H
Sbjct: 12 PYICNE--CGKSFIQKSHLNRHRRIHT 36
>pdb|1ZFD|A Chain A, Swi5 Zinc Finger Domain 2, Nmr, 45 Structures
Length = 32
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
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 = 5.9, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
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 = 6.0, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY+C CGK+F + ++L HQ++H
Sbjct: 12 PYICAE--CGKAFTIRSNLIKHQKIHT 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 = 6.1, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 184 YMCDYKGCGKSFYLMASLKSHQRVHV 209
Y CD CGK F + L++HQRVH
Sbjct: 13 YKCDV--CGKEFSQSSHLQTHQRVHT 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 = 6.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ C+ CGK F + L SHQRVH
Sbjct: 12 PFQCEE--CGKRFTQNSHLHSHQRVHT 36
>pdb|2EMM|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
544- 576) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
P+ C+ CGKSF A L HQR+H
Sbjct: 12 PHKCNE--CGKSFIQSAHLIQHQRIHT 36
>pdb|2EMK|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
668- 700) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV 209
PY C K CGK+F L HQRVH
Sbjct: 12 PYEC--KECGKAFSQTTHLIQHQRVHT 36
>pdb|2EML|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
752- 784) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVH 208
PY C CGK+F SL HQR+H
Sbjct: 12 PYECSV--CGKAFSHRQSLSVHQRIH 35
>pdb|2EP1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
435- 467) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 183 PYMCDYKGCGKSFYLMASLKSHQRVHV-TNP 212
PY C CGKSF + L HQR+H NP
Sbjct: 12 PYECS--DCGKSFIKKSQLHVHQRIHTGENP 40
>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 = 27.3 bits (59), Expect = 9.2, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 178 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 208
S+ PY+C+ CGK+F L + L H+R+H
Sbjct: 5 SSGQKPYVCNE--CGKAFGLKSQLIIHERIH 33
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 180 VSAPYMCDYKGCGKSFYLMASLKSHQRVHV 209
V PY C+ CGK + +L HQRVH+
Sbjct: 9 VEKPYKCE--DCGKGYNRRLNLDMHQRVHM 36
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
0.321 0.133 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,392,431
Number of Sequences: 62578
Number of extensions: 326741
Number of successful extensions: 1014
Number of sequences better than 100.0: 87
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 715
Number of HSP's gapped (non-prelim): 243
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
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: 51 (24.3 bits)