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= psy11069
(391 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 = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 58/174 (33%), Positives = 80/174 (45%), Gaps = 11/174 (6%)
Query: 111 WSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 170
+ C +C + HL KH +KPF CK C GF S H L RH +H
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCK-----EEGCEKGFTSLHHLTRHSLTH 67
Query: 171 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVR--HGKPLTLCCEELGCGRKFQTMKQYSTHL 228
+K + CD C+ RFTT +N+K H R + K C CG+ F+ Q H
Sbjct: 68 TGEKN-FTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQ 126
Query: 229 KEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP--EDLVCKGCGKQFKV 280
H+ PY C ++GC K F L + LK H++VH P +D C GK + +
Sbjct: 127 FSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCKKDDSCSFVGKTWTL 179
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/131 (32%), Positives = 63/131 (48%), Gaps = 3/131 (2%)
Query: 162 KLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM 221
KL H+ H +K +PC ++ C K FT+L +L H + H C+ GC +F T
Sbjct: 29 KLQAHLCKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTK 87
Query: 222 KQYSTHLKEHSNVS-APYMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFK 279
H N+ Y+C ++ CGK+F LK HQ H P + +GC K+F
Sbjct: 88 ANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFS 147
Query: 280 VPCRLREHYKA 290
+P RL+ H K
Sbjct: 148 LPSRLKRHEKV 158
Score = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 49/156 (31%), Positives = 76/156 (48%), Gaps = 7/156 (4%)
Query: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKAV 291
V Y+C + CG ++ L++H H T + CK GC K F L H
Sbjct: 9 VYKRYICSFADCGAAYNKNWKLQAHLCKH-TGEKPFPCKEEGCEKGFTSLHHLTRH-SLT 66
Query: 292 HESTKNFKCTHDGCKLLFSSKSALKRH-NKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHM 350
H KNF C DGC L F++K+ +K+H N+ ++ + ++ C CGK+F + L+ H
Sbjct: 67 HTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQ 126
Query: 351 LQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 386
H + P + CP++ C + S L H K VH+
Sbjct: 127 FSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK-VHA 160
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 45/147 (30%), Positives = 66/147 (44%), Gaps = 5/147 (3%)
Query: 177 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
Y C +C + L+ H+ +H C+E GC + F ++ + H H+
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG-EK 71
Query: 237 PYMCDYKGCGKSFYLMASLKSH-QRVHVTNPEDLVC--KGCGKQFKVPCRLREHYKAVHE 293
+ CD GC F A++K H R H VC + CGK FK +L+ H + H
Sbjct: 72 NFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVH-QFSHT 130
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
++C H+GC FS S LKRH K
Sbjct: 131 QQLPYECPHEGCDKRFSLPSRLKRHEK 157
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH-LKHVH 385
+ + C CG ++ ++ LQ H+ +H KP F C + C + + L H L H
Sbjct: 11 KRYICSFADCGAAYNKNWKLQAHLCKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTG 69
Query: 386 STN 388
N
Sbjct: 70 EKN 72
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 90/204 (44%), Gaps = 17/204 (8%)
Query: 188 FTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGK 247
F + S++ + G+ C E CG+ F + H + H+ PY C CGK
Sbjct: 4 FGSSSSVAQAALEPGEKPYACPE---CGKSFSRSDHLAEHQRTHTG-EKPYKCPE--CGK 57
Query: 248 SFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKL 307
SF L HQR H T + C CGK F LR H + H K + C C
Sbjct: 58 SFSDKKDLTRHQRTH-TGEKPYKCPECGKSFSQRANLRAHQR-THTGEKPYACPE--CGK 113
Query: 308 LFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDC 367
FS + L+ H ++ H + + CP CGKSF R ++L H H KP + CP +C
Sbjct: 114 SFSQLAHLRAHQRT-HTGEKPYKCP--ECGKSFSREDNLHTHQRTHTGEKP-YKCP--EC 167
Query: 368 LMSYVAKSSLYAHLKHVHSTNKIT 391
S+ + +L H + H+ K +
Sbjct: 168 GKSFSRRDALNVHQR-THTGKKTS 190
Score = 62.4 bits (150), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 56/184 (30%), Positives = 75/184 (40%), Gaps = 19/184 (10%)
Query: 138 KKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+KP+ C C F L H +H +K Y C + C K F+ +L H
Sbjct: 19 EKPYACPE-------CGKSFSRSDHLAEHQRTHTGEKP-YKCPE--CGKSFSDKKDLTRH 68
Query: 198 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKS 257
H C E CG+ F H + H+ PY C CGKSF +A L++
Sbjct: 69 QRTHTGEKPYKCPE--CGKSFSQRANLRAHQRTHTG-EKPYACPE--CGKSFSQLAHLRA 123
Query: 258 HQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKR 317
HQR H T + C CGK F L H + H K +KC C FS + AL
Sbjct: 124 HQRTH-TGEKPYKCPECGKSFSREDNLHTHQR-THTGEKPYKCPE--CGKSFSRRDALNV 179
Query: 318 HNKS 321
H ++
Sbjct: 180 HQRT 183
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 12/94 (12%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP +F+ L + H H +KP+KC C F + L H
Sbjct: 103 EKPYACPECGKSFS--QLAHLRAHQRTHTGEKPYKCPE-------CGKSFSREDNLHTHQ 153
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+H +K Y C + C K F+ L +H H
Sbjct: 154 RTHTGEKP-YKCPE--CGKSFSRRDALNVHQRTH 184
>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 = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 61/118 (51%), Gaps = 4/118 (3%)
Query: 240 CDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFK 299
C +KGC K F ++++ H +H P VC CGK F +L+ H + VH K F+
Sbjct: 8 CPHKGCTKMFRDNSAMRKH--LHTHGPRVHVCAECGKAFVESSKLKRH-QLVHTGEKPFQ 64
Query: 300 CTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 357
CT +GC FS L+ H + H R + CP C K F +S +L+ H+L H + K
Sbjct: 65 CTFEGCGKRFSLDFNLRTHVRI-HTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAKAK 121
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 40/121 (33%), Positives = 57/121 (47%), Gaps = 8/121 (6%)
Query: 179 CDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPY 238
C K C K F S ++ H+ HG + +C E CG+ F + H H+ P+
Sbjct: 8 CPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAE---CGKAFVESSKLKRHQLVHTG-EKPF 63
Query: 239 MCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVC--KGCGKQFKVPCRLREHYKAVHESTK 296
C ++GCGK F L +L++H R+H T VC GC K+F L+ H H K
Sbjct: 64 QCTFEGCGKRFSLDFNLRTHVRIH-TGDRPYVCPFDGCNKKFAQSTNLKSHI-LTHAKAK 121
Query: 297 N 297
N
Sbjct: 122 N 122
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 54/117 (46%), Gaps = 6/117 (5%)
Query: 203 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
+P T+ C GC + F+ HL H P + CGK+F + LK HQ VH
Sbjct: 2 EPRTIACPHKGCTKMFRDNSAMRKHLHTH----GPRVHVCAECGKAFVESSKLKRHQLVH 57
Query: 263 VTN-PEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRH 318
P +GCGK+F + LR H + +H + + C DGC F+ + LK H
Sbjct: 58 TGEKPFQCTFEGCGKRFSLDFNLRTHVR-IHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 47/94 (50%), Gaps = 6/94 (6%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ C H GC +F SA+++H + R+ C CGK+F+ S L+ H L H
Sbjct: 4 RTIACPHKGCTKMFRDNSAMRKHLHTH--GPRVHVC--AECGKAFVESSKLKRHQLVHTG 59
Query: 356 NKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 389
KP F C ++ C + +L H++ +H+ ++
Sbjct: 60 EKP-FQCTFEGCGKRFSLDFNLRTHVR-IHTGDR 91
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 37/88 (42%), Gaps = 6/88 (6%)
Query: 116 VNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKK 175
C V + K H L H +KPF+C C F L H+ H D+
Sbjct: 38 AECGKAFVESSKLKRHQLVHTGEKPFQCTFEG-----CGKRFSLDFNLRTHVRIHTGDRP 92
Query: 176 CYPCDQKNCNKRFTTLSNLKMHMVRHGK 203
Y C CNK+F +NLK H++ H K
Sbjct: 93 -YVCPFDGCNKKFAQSTNLKSHILTHAK 119
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 1/82 (1%)
Query: 153 CMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEEL 212
C F KL RH H +K + C + C KRF+ NL+ H+ H C
Sbjct: 40 CGKAFVESSKLKRHQLVHTGEKP-FQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFD 98
Query: 213 GCGRKFQTMKQYSTHLKEHSNV 234
GC +KF +H+ H+
Sbjct: 99 GCNKKFAQSTNLKSHILTHAKA 120
>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 = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 58/144 (40%), Gaps = 34/144 (23%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 296
P+MC Y GC K ++ ++ L+ H R H K
Sbjct: 6 PFMCAYPGCNKRYFKLSHLQMHSRKHT------------------------------GEK 35
Query: 297 NFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNEN 356
++C C+ FS LKRH + +H ++ F C TC + F RS+HL+ H H
Sbjct: 36 PYQCDFKDCERRFSRSDQLKRHQR-RHTGVKPFQC--KTCQRKFSRSDHLKTHTRTHTGE 92
Query: 357 KPKFTCPYQDCLMSYVAKSSLYAH 380
KP F+C + C + L H
Sbjct: 93 KP-FSCRWPSCQKKFARSDELVRH 115
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 52/108 (48%), Gaps = 6/108 (5%)
Query: 173 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHS 232
+K+ + C CNKR+ LS+L+MH +H C+ C R+F Q H + H+
Sbjct: 3 EKRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHT 62
Query: 233 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQF 278
V P+ C K C + F LK+H R H T + C+ C K+F
Sbjct: 63 GV-KPFQC--KTCQRKFSRSDHLKTHTRTH-TGEKPFSCRWPSCQKKF 106
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 8/106 (7%)
Query: 113 CPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 172
C CN L+ ++H KH +KP++C C F +L RH H
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKD-----CERRFSRSDQLKRHQRRHTG 63
Query: 173 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKF 218
K P K C ++F+ +LK H H C C +KF
Sbjct: 64 VK---PFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKF 106
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ F C + GC + S L+ H++ KH + + C C + F RS+ L+ H +H
Sbjct: 5 RPFMCAYPGCNKRYFKLSHLQMHSR-KHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTG 63
Query: 356 NKPKFTCPYQDCLMSYVAKSSLYAHLK 382
KP F C + C + L H +
Sbjct: 64 VKP-FQC--KTCQRKFSRSDHLKTHTR 87
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 44/178 (24%), Positives = 71/178 (39%), Gaps = 37/178 (20%)
Query: 179 CDQKNCNKRFTTLSNLKMHMVR---HGKPLTLCCEELGCGRKFQTMK-QY--STHLKEHS 232
C C++ F + L H+ HG+ C GC R+ + K QY H++ H+
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHT 63
Query: 233 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVH 292
P+ C ++GC KS+ + +LK+H R H
Sbjct: 64 G-EKPHKCTFEGCRKSYSRLENLKTHLRSHT----------------------------- 93
Query: 293 ESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHM 350
K + C H+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: 153 CMWG--------FFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKP 204
C WG F +++ L+ HM H +K + C + C K ++ L NLK H+ H
Sbjct: 37 CHWGGCSRELRPFKAQYMLVVHMRRHTGEKP-HKCTFEGCRKSYSRLENLKTHLRSHTGE 95
Query: 205 LTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSH 258
CE GC + F + H + PY+C GC K + +SL+ H
Sbjct: 96 KPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKH 149
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/155 (29%), Positives = 66/155 (42%), Gaps = 11/155 (7%)
Query: 240 CDYKGCGKSFYLMASLKSH---QRVHVTNPEDLVC--KGCGKQ---FKVPCRLREHYKAV 291
C + GC + F L H + +H E VC GC ++ FK L H +
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKE-FVCHWGGCSRELRPFKAQYMLVVHMRR- 61
Query: 292 HESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHML 351
H K KCT +GC+ +S LK H +S H + + C C K+F + +H
Sbjct: 62 HTGEKPHKCTFEGCRKSYSRLENLKTHLRS-HTGEKPYMCEHEGCSKAFSNASDRAKHQN 120
Query: 352 QHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 386
+ + N+ + C C Y SSL H+K VH
Sbjct: 121 RTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVHG 155
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 53/127 (41%), Gaps = 7/127 (5%)
Query: 268 DLVCKGCGKQFKVPCRLREHYKA--VHESTKNFKCTHDGCKLL---FSSKSALKRHNKSK 322
D GC ++F +L H + +H K F C GC F ++ L H + +
Sbjct: 3 DCRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMR-R 61
Query: 323 HLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
H + C C KS+ R E+L+ H+ H KP + C ++ C ++ S H
Sbjct: 62 HTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKP-YMCEHEGCSKAFSNASDRAKHQN 120
Query: 383 HVHSTNK 389
HS K
Sbjct: 121 RTHSNEK 127
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 113 CPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 172
C C + L K HL H +KP+ C+ + C F + +H
Sbjct: 70 CTFEGCRKSYSRLENLKTHLRSHTGEKPYMCE-----HEGCSKAFSNASDRAKHQNRTHS 124
Query: 173 DKKCYPCDQKNCNKRFTTLSNLKMHM 198
++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 = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 50/122 (40%), Gaps = 33/122 (27%)
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 291
+ +A + CDY GCGK++ + LK+H R H
Sbjct: 1 GSRTATHTCDYAGCGKTYTKSSHLKAHLRTHT---------------------------- 32
Query: 292 HESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHML 351
K + C DGC F+ L RH + KH R F C C ++F RS+HL HM
Sbjct: 33 --GEKPYHCDWDGCGWKFARSDELTRHYR-KHTGHRPFQCQ--KCDRAFSRSDHLALHMK 87
Query: 352 QH 353
+H
Sbjct: 88 RH 89
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 203 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
+ T C+ GCG+ + HL+ H+ PY CD+ GCG F L H R H
Sbjct: 3 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTG-EKPYHCDWDGCGWKFARSDELTRHYRKH 61
Query: 263 VTNPEDLVCKGCGKQF 278
T C+ C + F
Sbjct: 62 -TGHRPFQCQKCDRAF 76
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 8/90 (8%)
Query: 112 SCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHD 171
+C C T + K HL H +KP+ C + C W F +L RH H
Sbjct: 8 TCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHC-----DWDGCGWKFARSDELTRHYRKHT 62
Query: 172 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+ P + C++ F+ +L +HM RH
Sbjct: 63 GHR---PFQCQKCDRAFSRSDHLALHMKRH 89
Score = 41.6 bits (96), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 177 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
+ CD C K +T S+LK H+ H C+ GCG KF + + H ++H+
Sbjct: 7 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG-HR 65
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+ C + C ++F L H + H
Sbjct: 66 PFQC--QKCDRAFSRSDHLALHMKRHF 90
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 295 TKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHN 354
T C + GC ++ S LK H ++ H + + C CG F RS+ L H +H
Sbjct: 4 TATHTCDYAGCGKTYTKSSHLKAHLRT-HTGEKPYHCDWDGCGWKFARSDELTRHYRKHT 62
Query: 355 ENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
++P F C Q C ++ L H+K
Sbjct: 63 GHRP-FQC--QKCDRAFSRSDHLALHMK 87
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 163 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 222
L H+ +H +K Y CD C +F L H +H C++ C R F
Sbjct: 24 LKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK--CDRAFSRSD 80
Query: 223 QYSTHLKEH 231
+ 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 = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 49/119 (41%), Gaps = 33/119 (27%)
Query: 235 SAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHES 294
+A + CDY GCGK++ + LK+H R H
Sbjct: 3 TATHTCDYAGCGKTYTKSSHLKAHLRTHT------------------------------G 32
Query: 295 TKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 353
K + C DGC F+ L RH + KH R F C C ++F RS+HL HM +H
Sbjct: 33 EKPYHCDWDGCGWKFARSDELTRHYR-KHTGHRPFQCQ--KCDRAFSRSDHLALHMKRH 88
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 203 KPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
+ T C+ GCG+ + HL+ H+ PY CD+ GCG F L H R H
Sbjct: 2 RTATHTCDYAGCGKTYTKSSHLKAHLRTHTG-EKPYHCDWDGCGWKFARSDELTRHYRKH 60
Query: 263 VTNPEDLVCKGCGKQF 278
T C+ C + F
Sbjct: 61 -TGHRPFQCQKCDRAF 75
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 8/90 (8%)
Query: 112 SCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHD 171
+C C T + K HL H +KP+ C + C W F +L RH H
Sbjct: 7 TCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHC-----DWDGCGWKFARSDELTRHYRKHT 61
Query: 172 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+ P + C++ F+ +L +HM RH
Sbjct: 62 GHR---PFQCQKCDRAFSRSDHLALHMKRH 88
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 177 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
+ CD C K +T S+LK H+ H C+ GCG KF + + H ++H+
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTG-HR 64
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+ C + C ++F L H + H
Sbjct: 65 PFQC--QKCDRAFSRSDHLALHMKRHF 89
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 293 ESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQ 352
+ T C + GC ++ S LK H ++ H + + C CG F RS+ L H +
Sbjct: 1 KRTATHTCDYAGCGKTYTKSSHLKAHLRT-HTGEKPYHCDWDGCGWKFARSDELTRHYRK 59
Query: 353 HNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
H ++P F C Q C ++ L H+K
Sbjct: 60 HTGHRP-FQC--QKCDRAFSRSDHLALHMK 86
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 163 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 222
L H+ +H +K Y CD C +F L H +H C++ C R F
Sbjct: 23 LKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK--CDRAFSRSD 79
Query: 223 QYSTHLKEH 231
+ H+K H
Sbjct: 80 HLALHMKRH 88
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 323 HLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
H + FPCP CGK F RSE+L+ H H KP F C ++ C + S H+
Sbjct: 85 HTGEKPFPCPFPGCGKIFARSENLKIHKRTHTGEKP-FKCEFEGCDRRFANSSDRKKHM- 142
Query: 383 HVHSTNK 389
HVH+++K
Sbjct: 143 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: 149 NNTPCMW--------GFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVR 200
NN C W F +K+KL+ H+ H +K +PC C K F NLK+H
Sbjct: 56 NNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKP-FPCPFPGCGKIFARSENLKIHKRT 114
Query: 201 HGKPLTLCCEELGCGRKFQTMKQYSTHLKEH-SNVSAP 237
H CE GC R+F H+ H S+ S P
Sbjct: 115 HTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTSDKSGP 152
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 57/148 (38%), Gaps = 44/148 (29%)
Query: 181 QKNCNKRFTTLSNLKMHMVRH--GKP--------LTLCCEELGCGRKFQTMKQYSTHLKE 230
+K+C++ F+T+ L H+ G P C E G+ F+ + H++
Sbjct: 28 KKSCDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPRE---GKSFKAKYKLVNHIRV 84
Query: 231 HSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKA 290
H+ P+ C + GCGK F +LK H+R H
Sbjct: 85 HTG-EKPFPCPFPGCGKIFARSENLKIHKRTHT--------------------------- 116
Query: 291 VHESTKNFKCTHDGCKLLFSSKSALKRH 318
K FKC +GC F++ S K+H
Sbjct: 117 ---GEKPFKCEFEGCDRRFANSSDRKKH 141
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 5/67 (7%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ + CP C KIH H +KPFKC+ C F + +HM
Sbjct: 88 EKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEG-----CDRRFANSSDRKKHM 142
Query: 168 TSHDEDK 174
H DK
Sbjct: 143 HVHTSDK 149
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 36/64 (56%)
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 353
+ C GC +FS++ L H K +H++ + F CP CGKSF +HL+EHM H
Sbjct: 4 GSSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLH 63
Query: 354 NENK 357
++ +
Sbjct: 64 SDTR 67
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNV-SAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPE 267
C+ GCGR F + +QY H K++ ++ + C CGKSF LK H ++H ++
Sbjct: 10 CDFPGCGRIF-SNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLH-SDTR 67
Query: 268 DLVCKGCG 275
D +C+ G
Sbjct: 68 DYICEFSG 75
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 3/75 (4%)
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVC--KGCGKQFKVPCRLREHYK 289
S+ S+ CD+ GCG+ F L H++ + + C CGK F L+EH K
Sbjct: 2 SSGSSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK 61
Query: 290 AVHESTKNFKCTHDG 304
+H T+++ C G
Sbjct: 62 -LHSDTRDYICEFSG 75
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 178 PCDQKNCNKRFTTLSNLKMHM-VRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
PCD C + F+ L H +H + C E CG+ F K H+K HS+
Sbjct: 9 PCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSDTRD 68
Query: 237 PYMCDYKG 244
Y+C++ G
Sbjct: 69 -YICEFSG 75
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 330 PCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 389
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 = 6.5, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 273 GCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPC 331
GCG+ F L H K H K+F C C F+ K LK H K H + R + C
Sbjct: 14 GCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK-LHSDTRDYIC 71
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 113 CPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDE 172
C +C + HL KH +KPF CK C GF S H L RH +H
Sbjct: 6 CSFADCGAAYNKNWKLQAHLSKHTGEKPFPCK-----EEGCEKGFTSLHHLTRHSLTHTG 60
Query: 173 DKKCYPCDQKNCNKRFTTLSNLKMHMVR 200
+K + CD C+ RFTT +N+K H R
Sbjct: 61 EKN-FTCDSDGCDLRFTTKANMKKHFNR 87
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCK--GCGKQFKVPCRLREHYKAVHEST 295
Y+C + CG ++ L++H H T + CK GC K F L H H
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKH-TGEKPFPCKEEGCEKGFTSLHHLTRH-SLTHTGE 61
Query: 296 KNFKCTHDGCKLLFSSKSALKRH 318
KNF C DGC L F++K+ +K+H
Sbjct: 62 KNFTCDSDGCDLRFTTKANMKKH 84
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 2/91 (2%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
K + C+ C ++ L+ H SKH + FPC C K F HL H L H
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAH-LSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG 60
Query: 356 NKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 386
K FTC C + + K+++ H H+
Sbjct: 61 EK-NFTCDSDGCDLRFTTKANMKKHFNRFHN 90
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 162 KLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM 221
KL H++ H +K +PC ++ C K FT+L +L H + H C+ GC +F T
Sbjct: 20 KLQAHLSKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTK 78
Query: 222 KQYSTHLKEHSNV 234
H N+
Sbjct: 79 ANMKKHFNRFHNI 91
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 2/89 (2%)
Query: 175 KCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNV 234
K Y C +C + L+ H+ +H C+E GC + F ++ + H H+
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTG- 60
Query: 235 SAPYMCDYKGCGKSFYLMASLKSH-QRVH 262
+ CD GC F A++K H R H
Sbjct: 61 EKNFTCDSDGCDLRFTTKANMKKHFNRFH 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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 48/117 (41%), Gaps = 33/117 (28%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKN 297
+ CDY GC K + + LK+H R H K
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTHT------------------------------GEKP 45
Query: 298 FKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHN 354
+KCT +GC F+ L RH + KH + F C + C +SF RS+HL HM +H
Sbjct: 46 YKCTWEGCDWRFARSDELTRHYR-KHTGAKPFQCGV--CNRSFSRSDHLALHMKRHQ 99
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 44/104 (42%), Gaps = 8/104 (7%)
Query: 98 SSTGGKNSKKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGF 157
S + G + +K+++ C C + K HL H +KP+KC C W F
Sbjct: 3 SGSSGPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEG-----CDWRF 57
Query: 158 FSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+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: 172 EDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 231
E ++ + CD C K +T S+LK H+ H C GC +F + + H ++H
Sbjct: 11 EKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKH 70
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
+ P+ C C +SF L H + H
Sbjct: 71 TGAK-PFQCGV--CNRSFSRSDHLALHMKRH 98
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 300 CTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPK 359
C + GC +++ S LK H ++ H + + C C F RS+ L H +H KP
Sbjct: 18 CDYPGCTKVYTKSSHLKAHLRT-HTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKP- 75
Query: 360 FTCPYQDCLMSYVAKSSLYAHLK 382
F C C S+ L H+K
Sbjct: 76 FQCGV--CNRSFSRSDHLALHMK 96
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R+ C C K + +S HL+ H+ H KP + C ++ C + L H +
Sbjct: 14 RIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYR 68
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 163 LLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMK 222
L H+ +H +K Y C + C+ RF L H +H C C R F
Sbjct: 33 LKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGV--CNRSFSRSD 89
Query: 223 QYSTHLKEHSN 233
+ 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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 43/87 (49%), Gaps = 6/87 (6%)
Query: 271 CKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFP 330
C CGK F L++H + H K +KC C FS S L++H ++ H + +
Sbjct: 7 CPECGKSFSQSSNLQKHQR-THTGEKPYKCPE--CGKSFSQSSDLQKHQRT-HTGEKPYK 62
Query: 331 CPLVTCGKSFLRSEHLQEHMLQHNENK 357
CP CGKSF RS+HL H H K
Sbjct: 63 CP--ECGKSFSRSDHLSRHQRTHQNKK 87
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 8/87 (9%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
K +KC C FS S L++H ++ H + + CP CGKSF +S LQ+H H
Sbjct: 3 KPYKCPE--CGKSFSQSSNLQKHQRT-HTGEKPYKCP--ECGKSFSQSSDLQKHQRTHTG 57
Query: 356 NKPKFTCPYQDCLMSYVAKSSLYAHLK 382
KP + CP +C S+ L H +
Sbjct: 58 EKP-YKCP--ECGKSFSRSDHLSRHQR 81
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 174 KKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 233
+K Y C + C K F+ SNL+ H H C E CG+ F H + H+
Sbjct: 2 EKPYKCPE--CGKSFSQSSNLQKHQRTHTGEKPYKCPE--CGKSFSQSSDLQKHQRTHTG 57
Query: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
PY C CGKSF L HQR H
Sbjct: 58 -EKPYKCPE--CGKSFSRSDHLSRHQRTH 83
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 39/96 (40%), Gaps = 12/96 (12%)
Query: 138 KKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+KP+KC C F L +H +H +K Y C + C K F+ S+L+ H
Sbjct: 2 EKPYKC-------PECGKSFSQSSNLQKHQRTHTGEKP-YKCPE--CGKSFSQSSDLQKH 51
Query: 198 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 233
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 = 4e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 214 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKG 273
CG+ F+ STHL HS+ + PY C Y CGK F+ + +K H +H T + C+
Sbjct: 7 CGKSFKRSSTLSTHLLIHSD-TRPYPCQY--CGKRFHQKSDMKKHTFIH-TGEKPHKCQV 62
Query: 274 CGKQFKVPCRLREHYK 289
CGK F L H +
Sbjct: 63 CGKAFSQSSNLITHSR 78
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 6/84 (7%)
Query: 271 CKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFP 330
CK CGK FK L H +H T+ + C + C F KS +K+H ++ P
Sbjct: 4 CKICGKSFKRSSTLSTHL-LIHSDTRPYPCQY--CGKRFHQKSDMKKHT---FIHTGEKP 57
Query: 331 CPLVTCGKSFLRSEHLQEHMLQHN 354
CGK+F +S +L H +H
Sbjct: 58 HKCQVCGKAFSQSSNLITHSRKHT 81
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 241 DYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKC 300
D K CGKSF ++L +H +H ++ C+ CGK+F +++H +H K KC
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIH-SDTRPYPCQYCGKRFHQKSDMKKH-TFIHTGEKPHKC 60
Query: 301 THDGCKLLFSSKSALKRHNK 320
C FS S L H++
Sbjct: 61 --QVCGKAFSQSSNLITHSR 78
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 180 DQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYM 239
D K C K F S L H++ H C+ CG++F H H+ P+
Sbjct: 3 DCKICGKSFKRSSTLSTHLLIHSDTRPYPCQY--CGKRFHQKSDMKKHTFIHTG-EKPHK 59
Query: 240 CDYKGCGKSFYLMASLKSHQRVHV 263
C CGK+F ++L +H R H
Sbjct: 60 CQV--CGKAFSQSSNLITHSRKHT 81
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 329 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 380
F C + CGKSF RS L H+L H++ +P P Q C + KS + H
Sbjct: 2 FDCKI--CGKSFKRSSTLSTHLLIHSDTRPY---PCQYCGKRFHQKSDMKKH 48
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 12/91 (13%)
Query: 111 WSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 170
+ C I +F +T HLL H D +P+ C+ C F K + +H H
Sbjct: 2 FDCKICGKSFK--RSSTLSTHLLIHSDTRPYPCQY-------CGKRFHQKSDMKKHTFIH 52
Query: 171 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+K P + C K F+ SNL H +H
Sbjct: 53 TGEK---PHKCQVCGKAFSQSSNLITHSRKH 80
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 12/93 (12%)
Query: 141 FKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVR 200
F CK+ C F L H+ H D + YPC + C KRF S++K H
Sbjct: 2 FDCKI-------CGKSFKRSSTLSTHLLIH-SDTRPYPC--QYCGKRFHQKSDMKKHTFI 51
Query: 201 HGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 233
H C+ CG+ F TH ++H+
Sbjct: 52 HTGEKPHKCQV--CGKAFSQSSNLITHSRKHTG 82
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP-- 266
C CG+ F+ Q H H+ PY C ++GC K F L + LK H++VH P
Sbjct: 4 CHFENCGKAFKKHNQLKVHQFSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCK 62
Query: 267 EDLVCKGCGKQF 278
+D C GK +
Sbjct: 63 KDDSCSFVGKTW 74
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYKA 290
Y+C ++ CGK+F LK HQ H P + +GC K+F +P RL+ H K
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKV 55
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 177 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
Y C +NC K F + LK+H H + L C GC ++F + LK H V A
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSL----PSRLKRHEKVHA 57
Query: 237 PYMC 240
Y C
Sbjct: 58 GYPC 61
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 328 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
M+ C CGK+F + L+ H H + P + CP++ C + S L H K
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK 54
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNK 320
+ CGK FK +L+ H + H ++C H+GC FS S LKRH K
Sbjct: 7 ENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 158 FSKHKLLR-HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH-GKPLTLCCEELGCG 215
F KH L+ H SH + Y C + C+KRF+ S LK H H G P C ++ C
Sbjct: 13 FKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEKVHAGYP---CKKDDSCS 68
Query: 216 RKFQTMKQYSTHLKE 230
+T Y H+ E
Sbjct: 69 FVGKTWTLYLKHVAE 83
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP-- 266
C CG+ F+ Q H H+ PY C ++GC K F L + LK H++VH P
Sbjct: 4 CHFENCGKAFKKHNQLKVHQFSHTQ-QLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPCK 62
Query: 267 EDLVCKGCGKQF 278
+D C GK +
Sbjct: 63 KDDSCSFVGKTW 74
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYKA 290
Y+C ++ CGK+F LK HQ H P + +GC K+F +P RL+ H K
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKV 55
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 177 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
Y C +NC K F + LK+H H + L C GC ++F + LK H V A
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSL----PSRLKRHEKVHA 57
Query: 237 PYMC 240
Y C
Sbjct: 58 GYPC 61
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 328 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
M+ C CGK+F + L+ H H + P + CP++ C + S L H K
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK 54
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNK 320
+ CGK FK +L+ H + H ++C H+GC FS S LKRH K
Sbjct: 7 ENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 158 FSKHKLLR-HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH-GKPLTLCCEELGCG 215
F KH L+ H SH + Y C + C+KRF+ S LK H H G P C ++ C
Sbjct: 13 FKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEKVHAGYP---CKKDDSCS 68
Query: 216 RKFQTMKQYSTHLKE 230
+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 = 0.001, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 5/91 (5%)
Query: 177 YPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSA 236
Y C ++C++RF+ + L H+ H C C R F +TH++ H+
Sbjct: 5 YACPVESCDRRFSRSAELTRHIRIHTGQKPFQCR--ICMRNFSRSDHLTTHIRTHTG-EK 61
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPE 267
P+ CD CG+ F K H ++H+ +
Sbjct: 62 PFACDI--CGRKFARSDERKRHTKIHLRQKD 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: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 293
+ PY C + C + F A L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSAELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ H+ H +KPF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 35.0 bits (79), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS + L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSAELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 356 NKPKFTC 362
KP F C
Sbjct: 60 EKP-FAC 65
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F RS L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSAELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 43/90 (47%), Gaps = 5/90 (5%)
Query: 174 KKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSN 233
++ Y C ++C++RF+ ++L H+ H C C R F +TH++ H+
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+ CD CG+ F K H ++H+
Sbjct: 60 -EKPFACDI--CGRKFARSDERKRHTKIHL 86
Score = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 27/84 (32%), Positives = 35/84 (41%), Gaps = 4/84 (4%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 296
PY C + C + F A L H R+H T + C+ C + F L H + H K
Sbjct: 4 PYACPVESCDRRFSRSADLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIRT-HTGEK 61
Query: 297 NFKCTHDGCKLLFSSKSALKRHNK 320
F C D C F+ KRH K
Sbjct: 62 PFAC--DICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS + L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSADLTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 356 NKPKFTC 362
KP F C
Sbjct: 60 EKP-FAC 65
Score = 33.1 bits (74), Expect = 0.29, Method: Composition-based stats.
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 10/91 (10%)
Query: 111 WSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 170
++CP+ +C+ H+ H +KPF+C++ CM F L H+ +H
Sbjct: 5 YACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHIRTH 57
Query: 171 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+K + CD C ++F K H H
Sbjct: 58 TGEKP-FACDI--CGRKFARSDERKRHTKIH 85
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F RS L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSADLTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPC 331
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSRSADLTRHIR-IHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 332 PLVTCGKSFLRSEHLQEHMLQHNENK 357
+ CG+ F RS+ + H H K
Sbjct: 66 DI--CGRKFARSDERKRHTKIHLRQK 89
>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: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 293
+ PY C + C + F SL H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSQSGSLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ + H+ H +KPF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS +L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSQSGSLTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 356 NKPKFTC 362
KP F C
Sbjct: 60 EKP-FAC 65
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F +S L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSQSGSLTRHIRIHTGQKP-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 = 23/90 (25%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ H+ H +KPF+C++ CM F + L H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI-------CMRNFSQQASLNAHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F TL H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFATLHTRTRH 81
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 268
C C R+F TH++ H+ P+ C + C ++F ASL +H R H T +
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTG-QKPFQC--RICMRNFSQQASLNAHIRTH-TGEKP 62
Query: 269 LVCKGCGKQF 278
C CG++F
Sbjct: 63 FACDICGRKF 72
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 37/87 (42%), Gaps = 4/87 (4%)
Query: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 293
+ PY C + C + F +L +H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIH-TGQKPFQCRICMRNFSQQASLNAHIR-THT 58
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
K F C D C F++ RH K
Sbjct: 59 GEKPFAC--DICGRKFATLHTRTRHTK 83
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F + +L H+ H KP F C + C+ ++ ++SL AH++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQC--RICMRNFSQQASLNAHIR 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 = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ H+ H +KPF+C++ CM F L +H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI-------CMRNFSQHTGLNQHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F TL H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFATLHTRDRH 81
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 293
+ PY C + C + F +L +H R+H T + C+ C + F L +H + H
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIH-TGQKPFQCRICMRNFSQHTGLNQHIR-THT 58
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
K F C D C F++ RH K
Sbjct: 59 GEKPFAC--DICGRKFATLHTRDRHTK 83
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 5/89 (5%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 268
C C R+F TH++ H+ P+ C + C ++F L H R H T +
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTG-QKPFQC--RICMRNFSQHTGLNQHIRTH-TGEKP 62
Query: 269 LVCKGCGKQFKVPCRLREHYKAVHESTKN 297
C CG++F R+ + +H K+
Sbjct: 63 FACDICGRKFAT-LHTRDRHTKIHLRQKD 90
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F + +L H+ H KP F C + C+ ++ + L H++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQC--RICMRNFSQHTGLNQHIR 55
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 325 NMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
+R C CGK++ +S HL+ H H KP F+C ++ C + L H +
Sbjct: 14 RIRSHICSHPGCGKTYFKSSHLKAHTRTHTGEKP-FSCSWKGCERRFARSDELSRHRR 70
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHVTN-PEDLVCKGCGKQFKVPCRLREHYK 289
++C + GCGK+++ + LK+H R H P KGC ++F L H +
Sbjct: 18 HICSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRR 70
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
C GCG+ + H + H+ P+ C +KGC + F L H+R H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTG-EKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 34.7 bits (78), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 300 CTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 353
C+H GC + S LK H ++ H + F C C + F RS+ L H H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRT-HTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 21/53 (39%)
Query: 179 CDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 231
C C K + S+LK H H C GC R+F + S H + H
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
>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: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 293
+ PY C + C + F ++L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSDSSNLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ + + H+ H +KPF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACDI--CGRKFARSDERKRH 81
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS S L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSDSSNLTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 356 NKPKFTC 362
KP F C
Sbjct: 60 EKP-FAC 65
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F S +L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSDSSNLTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPC 331
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSDSSNLTRHIR-IHTGQKPFQCR--ICMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 332 PLVTCGKSFLRSEHLQEHMLQHNENK 357
+ CG+ F RS+ + H H K
Sbjct: 66 DI--CGRKFARSDERKRHTKIHLRQK 89
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ + H+ H +KPF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 296
PY C + C + F L H R+H T + C+ C + F L H + H K
Sbjct: 4 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THTGEK 61
Query: 297 NFKCTHDGCKLLFSSKSALKRHNK 320
F C D C F+ KRH K
Sbjct: 62 PFAC--DICGRKFARSDERKRHTK 83
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 356 NKPKFTC 362
KP F C
Sbjct: 60 EKP-FAC 65
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 201 HGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQR 260
H +P C C R+F + + H++ H+ P+ C + C ++F L +H R
Sbjct: 1 HERPYA--CPVESCDRRFSRSDELTRHIRIHTG-QKPFQC--RICMRNFSRSDHLTTHIR 55
Query: 261 VHVTNPEDLVCKGCGKQF 278
H T + C CG++F
Sbjct: 56 TH-TGEKPFACDICGRKF 72
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPC 331
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSRSDELTRHIR-IHTGQKPFQCR--ICMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 332 PLVTCGKSFLRSEHLQEHMLQH 353
+ CG+ F RS+ + H H
Sbjct: 66 DI--CGRKFARSDERKRHTKIH 85
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 108 QQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHM 167
++ ++CP+ +C+ + H+ H +KPF+C++ CM F L H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHI 54
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
+H +K + CD C ++F K H
Sbjct: 55 RTHTGEKP-FACD--ICGRKFARSDERKRH 81
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 234 VSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHE 293
+ PY C + C + F L H R+H T + C+ C + F L H + H
Sbjct: 1 MERPYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIR-THT 58
Query: 294 STKNFKCTHDGCKLLFSSKSALKRHNK 320
K F C D C F+ KRH K
Sbjct: 59 GEKPFAC--DICGRKFARSDERKRHTK 83
Score = 34.7 bits (78), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 59
Query: 356 NKPKFTC 362
KP F C
Sbjct: 60 EKP-FAC 65
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 268
C C R+F + + H++ H+ P+ C + C ++F L +H R H T +
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHTG-QKPFQC--RICMRNFSRSDHLTTHIRTH-TGEKP 62
Query: 269 LVCKGCGKQF 278
C CG++F
Sbjct: 63 FACDICGRKF 72
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPC 331
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 10 ESCDRRFSRSDELTRHIR-IHTGQKPFQCR--ICMRNFSRSDHLTTHIRT-HTGEKPFAC 65
Query: 332 PLVTCGKSFLRSEHLQEHMLQHNENK 357
+ 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 = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 38/89 (42%), Gaps = 4/89 (4%)
Query: 264 TNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKH 323
+ + C+ CGK F+ L H K H K + C C L F K + H +S H
Sbjct: 3 SGSSGVACEICGKIFRDVYHLNRH-KLSHSGEKPYSCPV--CGLRFKRKDRMSYHVRS-H 58
Query: 324 LNMRMFPCPLVTCGKSFLRSEHLQEHMLQ 352
P +CGK F R +HL H+ Q
Sbjct: 59 DGSVGKPYICQSCGKGFSRPDHLNGHIKQ 87
Score = 35.8 bits (81), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 35/84 (41%), Gaps = 8/84 (9%)
Query: 214 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVH---VTNPEDLV 270
CG+ F+ + + H HS PY C CG F + H R H V P +
Sbjct: 13 CGKIFRDVYHLNRHKLSHSG-EKPYSCPV--CGLRFKRKDRMSYHVRSHDGSVGKP--YI 67
Query: 271 CKGCGKQFKVPCRLREHYKAVHES 294
C+ CGK F P L H K VH
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 305 CKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPY 364
C +F L RH K H + + CP+ CG F R + + H+ H+ + K PY
Sbjct: 13 CGKIFRDVYHLNRH-KLSHSGEKPYSCPV--CGLRFKRKDRMSYHVRSHDGSVGK---PY 66
Query: 365 --QDCLMSYVAKSSLYAHLKHVHS 386
Q C + L H+K VHS
Sbjct: 67 ICQSCGKGFSRPDHLNGHIKQVHS 90
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 10/69 (14%)
Query: 131 HLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDED-KKCYPCDQKNCNKRFT 189
H L H +KP+ C + C F K ++ H+ SHD K Y C ++C K F+
Sbjct: 26 HKLSHSGEKPYSCPV-------CGLRFKRKDRMSYHVRSHDGSVGKPYIC--QSCGKGFS 76
Query: 190 TLSNLKMHM 198
+L H+
Sbjct: 77 RPDHLNGHI 85
>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 = 0.034, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 296
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 = 5.1, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
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: 356 NKP 358
KP
Sbjct: 71 EKP 73
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 219 QTMKQYSTHLKEHSNV---SAPYMCDYKGCGKSFYLMASLKSHQRVH 262
Q +Y +L H V PY C+ CG F A+LK+H R+H
Sbjct: 24 QASFRYKGNLASHKTVHTGEKPYRCNI--CGAQFNRPANLKTHTRIH 68
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 54/127 (42%), Gaps = 16/127 (12%)
Query: 113 CPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH-- 170
CP + F S K+H KH +KPF+C C +F K LL H +
Sbjct: 10 CPTCHKKFLSKYY--LKVHNRKHTGEKPFEC-------PKCGKCYFRKENLLEHEARNCM 60
Query: 171 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHL-K 229
+ ++ + C C + F L++HMV H + C C ++F K +H+ K
Sbjct: 61 NRSEQVFTCSV--CQETFRRRMELRLHMVSHTGEMPYKCS--SCSQQFMQKKDLQSHMIK 116
Query: 230 EHSNVSA 236
HS S+
Sbjct: 117 LHSGPSS 123
Score = 35.4 bits (80), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 7/79 (8%)
Query: 305 CKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH--NENKPKFTC 362
C F SK LK HN+ KH + F CP CGK + R E+L EH ++ N ++ FTC
Sbjct: 13 CHKKFLSKYYLKVHNR-KHTGEKPFECP--KCGKCYFRKENLLEHEARNCMNRSEQVFTC 69
Query: 363 PYQDCLMSYVAKSSLYAHL 381
C ++ + L H+
Sbjct: 70 SV--CQETFRRRMELRLHM 86
>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 = 35.8 bits (81), Expect = 0.042, Method: Composition-based stats.
Identities = 16/26 (61%), Positives = 19/26 (73%), Gaps = 2/26 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVH 262
PY+CDY CGK+F L A L HQR+H
Sbjct: 12 PYVCDY--CGKAFGLSAELVRHQRIH 35
>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 = 35.8 bits (81), Expect = 0.043, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTK 296
PY C + C + F L H R+H T + C+ C + F L H + H K
Sbjct: 3 PYACPVESCDRRFSRSDELTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIRT-HTGEK 60
Query: 297 NFKCTHDGCKLLFSSKSALKRHNK 320
F C D C F+ KRH K
Sbjct: 61 PFAC--DICGRKFARSDERKRHTK 82
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 23/91 (25%), Positives = 40/91 (43%), Gaps = 10/91 (10%)
Query: 111 WSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 170
++CP+ +C+ + H+ H +KPF+C++ CM F L H+ +H
Sbjct: 4 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTHIRTH 56
Query: 171 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVRH 201
+K + CD C ++F K H H
Sbjct: 57 TGEKP-FACDI--CGRKFARSDERKRHTKIH 84
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 2 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTG 58
Query: 356 NKPKFTC 362
KP F C
Sbjct: 59 EKP-FAC 64
Score = 32.0 bits (71), Expect = 0.59, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 4/81 (4%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED 268
C C R+F + + H++ H+ P+ C + C ++F L +H R H T +
Sbjct: 6 CPVESCDRRFSRSDELTRHIRIHTG-QKPFQC--RICMRNFSRSDHLTTHIRTH-TGEKP 61
Query: 269 LVCKGCGKQFKVPCRLREHYK 289
C CG++F + H K
Sbjct: 62 FACDICGRKFARSDERKRHTK 82
Score = 31.6 bits (70), Expect = 0.70, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 2 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 54
Score = 29.3 bits (64), Expect = 4.2, Method: Composition-based stats.
Identities = 24/94 (25%), Positives = 38/94 (40%), Gaps = 10/94 (10%)
Query: 138 KKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
++P+ C + + C F +L RH+ H K P + C + F+ +L H
Sbjct: 1 ERPYACPVES-----CDRRFSRSDELTRHIRIHTGQK---PFQCRICMRNFSRSDHLTTH 52
Query: 198 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEH 231
+ H C+ CGRKF + H K H
Sbjct: 53 IRTHTGEKPFACDI--CGRKFARSDERKRHTKIH 84
Score = 28.5 bits (62), Expect = 7.2, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 272 KGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPC 331
+ C ++F L H + +H K F+C C FS L H ++ H + F C
Sbjct: 9 ESCDRRFSRSDELTRHIR-IHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-HTGEKPFAC 64
Query: 332 PLVTCGKSFLRSEHLQEHMLQH 353
+ CG+ F RS+ + H H
Sbjct: 65 DI--CGRKFARSDERKRHTKIH 84
>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 = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 326 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 382
MR + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 17 MRPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 70
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 107 KQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRH 166
K + ++CP+ +C+ + H+ H +KPF+C++ CM F L H
Sbjct: 16 KMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI-------CMRNFSRSDHLTTH 68
Query: 167 MTSH 170
+ +H
Sbjct: 69 IRTH 72
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 353
+ + C + C FS L RH + H + F C + C ++F RS+HL H+ H
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRI--CMRNFSRSDHLTTHIRTH 72
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQF 278
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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 209 CEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTN 265
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 = 1.1, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQF 278
Y CD CGKSF + L H+R H T + C CGK F
Sbjct: 19 YKCDE--CGKSFSHSSDLSKHRRTH-TGEKPYKCDECGKAF 56
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 296 KNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 355
+ +KC D C FS S L +H ++ H + + C CGK+F++ HL H H
Sbjct: 17 RRYKC--DECGKSFSHSSDLSKHRRT-HTGEKPYKCD--ECGKAFIQRSHLIGHHRVHTG 71
Query: 356 NKP 358
+ P
Sbjct: 72 SGP 74
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 325 NMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 380
R + C CGKSF S L +H H KP + C +C +++ +S L H
Sbjct: 15 ERRRYKCD--ECGKSFSHSSDLSKHRRTHTGEKP-YKC--DECGKAFIQRSHLIGH 65
>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 = 0.13, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 36/91 (39%), Gaps = 8/91 (8%)
Query: 168 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH 227
+S K YPC C K FT S HM H C CG+KF+ H
Sbjct: 2 SSGSSGDKLYPC---QCGKSFTHKSQRDRHMSMHLGLRPYGCGV--CGKKFKMKHHLVGH 56
Query: 228 LKEHSNVSAPYMCDYKGCGKSFYLMASLKSH 258
+K H+ + PY C+ C K F S H
Sbjct: 57 MKIHTGIK-PYECNI--CAKRFMWRDSFHRH 84
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 305 CKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPY 364
C F+ KS RH S HL +R + C + CGK F HL HM H KP + C
Sbjct: 15 CGKSFTHKSQRDRH-MSMHLGLRPYGCGV--CGKKFKMKHHLVGHMKIHTGIKP-YEC-- 68
Query: 365 QDCLMSYVAKSSLYAHL 381
C ++ + S + H+
Sbjct: 69 NICAKRFMWRDSFHRHV 85
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 214 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKG 273
CG+ F Q H+ H + PY C CGK F + L H ++H T + C
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLR-PYGCGV--CGKKFKMKHHLVGHMKIH-TGIKPYECNI 70
Query: 274 CGKQF 278
C K+F
Sbjct: 71 CAKRF 75
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 245 CGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDG 304
CGKSF + H +H+ C CGK+FK+ L H K +H K ++C +
Sbjct: 15 CGKSFTHKSQRDRHMSMHL-GLRPYGCGVCGKKFKMKHHLVGHMK-IHTGIKPYEC--NI 70
Query: 305 CKLLFSSKSALKRH 318
C F + + RH
Sbjct: 71 CAKRFMWRDSFHRH 84
>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 = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 43/100 (43%), Gaps = 12/100 (12%)
Query: 138 KKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 197
KK F CK C F + LL H +H D++ Y CD C+K F +L+ H
Sbjct: 15 KKEFICKF-------CGRHFTKSYNLLIHERTHT-DERPYTCD--ICHKAFRRQDHLRDH 64
Query: 198 MVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAP 237
H K C+E CG+ F + + H H S+P
Sbjct: 65 RYIHSKEKPFKCQE--CGKGFCQSRTLAVHKTLHMQTSSP 102
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 291
S ++C + CG+ F +L H+R H T+ C C K F+ LR+H + +
Sbjct: 12 SKTKKEFICKF--CGRHFTKSYNLLIHERTH-TDERPYTCDICHKAFRRQDHLRDH-RYI 67
Query: 292 HESTKNFKCTHDG 304
H K FKC G
Sbjct: 68 HSKEKPFKCQECG 80
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 323 HLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 380
H + R + C + C K+F R +HL++H H++ KP F C Q+C + +L H
Sbjct: 40 HTDERPYTCDI--CHKAFRRQDHLRDHRYIHSKEKP-FKC--QECGKGFCQSRTLAVH 92
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 6/94 (6%)
Query: 260 RVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHN 319
R+ ++ +CK CG+ F L H + H + + C D C F + L+ H
Sbjct: 9 RLPSKTKKEFICKFCGRHFTKSYNLLIHER-THTDERPYTC--DICHKAFRRQDHLRDH- 64
Query: 320 KSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQH 353
++++ + P CGK F +S L H H
Sbjct: 65 --RYIHSKEKPFKCQECGKGFCQSRTLAVHKTLH 96
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 39/78 (50%), Gaps = 10/78 (12%)
Query: 310 SSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQ-HNENKPKFTCPYQDCL 368
SS S+ + H+ K P C F +S ++ H+LQ H EN KF CP+ D +
Sbjct: 2 SSGSSGRTHSGEK-------PYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTV 54
Query: 369 MSYVAKSSLYAHLKHVHS 386
++ KS L HL+ HS
Sbjct: 55 IA--RKSDLGVHLRKQHS 70
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 118 CNFTSVNLNTFKIHLLKHFDKKPFKCKLTTANNTPCMWGFFSKHKLLRHMTSHDED 173
C++ + + ++ HL H D++PFKC++ C + + +L H+ SH D
Sbjct: 42 CDYAAADSSSLNKHLRIHSDERPFKCQI-------CPYASRNSSQLTVHLRSHTGD 90
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAV 291
S S P+ C+ CGK F LK+H R H T + CK C L +H + +
Sbjct: 3 SGSSGPHKCEV--CGKCFSRKDKLKTHMRCH-TGVKPYKCKTCDYAAADSSSLNKHLR-I 58
Query: 292 HESTKNFKC 300
H + FKC
Sbjct: 59 HSDERPFKC 67
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 336 CGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 389
CGK F R + L+ HM H KP + C + C + SSL HL+ +HS +
Sbjct: 14 CGKCFSRKDKLKTHMRCHTGVKP-YKC--KTCDYAAADSSSLNKHLR-IHSDER 63
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 305 CKLLFSSKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPY 364
C FS K LK H + H ++ + C TC + S L +H+ H++ +P F C
Sbjct: 14 CGKCFSRKDKLKTHMRC-HTGVKPYKC--KTCDYAAADSSSLNKHLRIHSDERP-FKC-- 67
Query: 365 QDCLMSYVAKSSLYAHLK 382
Q C + S L HL+
Sbjct: 68 QICPYASRNSSQLTVHLR 85
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 214 CGRKFQTMKQYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNP 266
CG+ F H + H+ PY C CGK+F + L +HQR+H + P
Sbjct: 20 CGKAFSRSSILVQHQRVHTG-EKPYKCLE--CGKAFSQNSGLINHQRIHTSGP 69
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 335 TCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTN 388
C ++F R EHL+ H H KP P C ++ + L H + +HS N
Sbjct: 7 VCTRAFARQEHLKRHYRSHTNEKPY---PCGLCNRAFTRRDLLIRHAQKIHSGN 57
>pdb|3KBY|A Chain A, Crystal Structure Of Hypothetical Protein From
Staphylococcus Aureus
pdb|3KBY|B Chain B, Crystal Structure Of Hypothetical Protein From
Staphylococcus Aureus
Length = 145
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 71 LTVSWVYEEDAITEALQSLGINKEYFISST 100
L SWVY+E+ ITE +SL I +Y +++
Sbjct: 75 LPFSWVYDENGITETXKSLSIPLQYLVAAA 104
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 42/108 (38%), Gaps = 7/108 (6%)
Query: 185 NKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHSNVSAPYMCDYKG 244
NKR + ++ G+ +C + C R + + H HS Y C Y
Sbjct: 2 NKRMKVKHDDHYELIVDGRVYYIC---IVCKRSYVCLTSLRRHFNIHS-WEKKYPCRY-- 55
Query: 245 CGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVH 292
C K F L A ++ +H T C CGK F + H K+VH
Sbjct: 56 CEKVFPL-AEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSHIKSVH 102
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 6/89 (6%)
Query: 270 VCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSKHLNMRMF 329
+C C + + LR H+ +H K + C + C+ +F +H + H R +
Sbjct: 24 ICIVCKRSYVCLTSLRRHFN-IHSWEKKYPCRY--CEKVFPLAEYRTKH-EIHHTGERRY 79
Query: 330 PCPLVTCGKSFLRSEHLQEHMLQHNENKP 358
C + CGKSF+ + + H+ + P
Sbjct: 80 QC--LACGKSFINYQFMSSHIKSVHSQDP 106
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 270 VCKGCGKQFKVPCRLREHYKAVHESTKNFKC 300
+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 = 1.4, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PYMC+ CGK+F + +SL +HQ +H
Sbjct: 12 PYMCNE--CGKAFSVYSSLTTHQVIHT 36
>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double Cys2His2
Zinc Finger From The Human Enhancer Binding Protein
Mbp-1
Length = 57
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 270 VCKGCGKQFKVPCRLREHYKAVHESTKNFKCTHDGCKLLFSSKSALKRHNKSK 322
+C+ CG + K P L++H + H + + CT+ C F +K L +H KSK
Sbjct: 3 ICEECGIRXKKPSMLKKHIR-THTDVRPYHCTY--CNFSFKTKGNLTKHMKSK 52
>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 = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+MC + CGK F L+ H+R H
Sbjct: 2 PFMCTWSYCGKRFTRSDELQRHKRTHT 28
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 15/31 (48%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 357
R F C CGK F RS+ LQ H H K
Sbjct: 1 RPFMCTWSYCGKRFTRSDELQRHKRTHTGEK 31
>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 = 2.6, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY C CGK+F A+L HQR+H
Sbjct: 12 PYRCGE--CGKAFAQKANLTQHQRIHT 36
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 4/58 (6%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPCRLREHYKAVHES 294
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 = 3.4, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY C+ CGK+F + L HQRVH
Sbjct: 12 PYQCNE--CGKAFSQTSKLARHQRVHT 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 = 3.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+ C + CGK F L +LK+H ++H
Sbjct: 1 PFQCTFXCCGKRFSLDFNLKTHVKIHT 27
>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 = 3.8, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY C+ CGK+F + +SL +HQ +H
Sbjct: 12 PYECNQ--CGKAFSVRSSLTTHQAIHT 36
>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 = 4.0, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTN 265
S+ PY C K CGKSF SL H+R+H +
Sbjct: 5 SSGEKPYQC--KECGKSFSQRGSLAVHERLHTGS 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 = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY C+ CGK+F L A L H RVH
Sbjct: 12 PYSCNV--CGKAFVLSAHLNQHLRVHT 36
>pdb|2LVT|A Chain A, Solution Structure Of Miz-1 Zinc Finger 9
Length = 29
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 330 PCPLVTCGKSFLRSEHLQEHMLQHNENK 357
PC V CGK+F ++ L H+ QH K
Sbjct: 2 PCQCVMCGKAFTQASSLIAHVRQHTGEK 29
>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 = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVH 262
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 = 5.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
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 = 5.6, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY C+ CGK+F + L HQR+H
Sbjct: 12 PYKCNE--CGKAFSQTSKLARHQRIHT 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 = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY C+ CGK+F + L+ HQR+H
Sbjct: 12 PYNCEE--CGKAFIHDSQLQEHQRIHT 36
>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 = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 12/88 (13%)
Query: 235 SAPYMCDYKGCGKSF--YLMASLKSHQRVH---------VTNPEDL-VCKGCGKQFKVPC 282
+ P C +K ++F L LK+H V ++ PEDL V K C + C
Sbjct: 1 ADPESCTFKISLRNFRSILSWELKNHSIVPTHYTLLYTIMSKPEDLKVVKNCANTTRSFC 60
Query: 283 RLREHYKAVHESTKNFKCTHDGCKLLFS 310
L + +++ HE+ G LFS
Sbjct: 61 DLTDEWRSTHEAYVTVLEGFSGNTTLFS 88
>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 = 7.2, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVH 262
PY C K CGKSF + L HQRVH
Sbjct: 12 PYNC--KECGKSFRWASCLLKHQRVH 35
>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 = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+ C+ CGK F + L SHQRVH
Sbjct: 12 PFKCEE--CGKRFTQNSQLHSHQRVHT 36
>pdb|1RIK|A Chain A, E6-Binding Zinc Finger (E6apc1)
Length = 29
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 329 FPCPLVTCGKSFLRSEHLQEHMLQHNENK 357
F CP C K F+RS+HL H+L H K
Sbjct: 3 FACP--ECPKRFMRSDHLTLHILLHENKK 29
>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 = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY CD C KSF +SL HQR+H
Sbjct: 12 PYKCDV--CHKSFRYGSSLTVHQRIHT 36
>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 = 8.1, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY+C+ CGKSF + L H+R+H
Sbjct: 12 PYICNE--CGKSFIQKSHLNRHRRIHT 36
>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 = 8.5, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 327 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 357
+ F CP C K F+RS+HL +H+ H K
Sbjct: 1 KKFACP--ECPKRFMRSDHLSKHIKTHQNKK 29
>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 = 28.1 bits (61), Expect = 8.5, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 232 SNVSAPYMCDYKGCGKSFYLMASLKSHQRVH 262
S+ PY+C+ CGK+F L + L H+R+H
Sbjct: 5 SSGQKPYVCNE--CGKAFGLKSQLIIHERIH 33
>pdb|1ZFD|A Chain A, Swi5 Zinc Finger Domain 2, Nmr, 45 Structures
Length = 32
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVH 262
PY CD+ GC K+F L H++ H
Sbjct: 3 PYSCDHPGCDKAFVRNHDLIRHKKSH 28
>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 = 8.8, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 238 YMCDYKGCGKSFYLMASLKSHQRVHV 263
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 = 9.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
P+ C+ CGK F + L SHQRVH
Sbjct: 12 PFQCEE--CGKRFTQNSHLHSHQRVHT 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 = 9.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 237 PYMCDYKGCGKSFYLMASLKSHQRVHV 263
PY+C CGK+F + ++L HQ++H
Sbjct: 12 PYICAE--CGKAFTIRSNLIKHQKIHT 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
0.323 0.133 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,950,323
Number of Sequences: 62578
Number of extensions: 473452
Number of successful extensions: 1888
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 1406
Number of HSP's gapped (non-prelim): 367
length of query: 391
length of database: 14,973,337
effective HSP length: 101
effective length of query: 290
effective length of database: 8,652,959
effective search space: 2509358110
effective search space used: 2509358110
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)