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= psy10075
(373 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 56/185 (30%), Positives = 80/185 (43%), Gaps = 12/185 (6%)
Query: 73 MLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSL 132
+ ++ C C +FS + L +H QR HT ++P+ C C K D+T H
Sbjct: 12 QAALEPGEKPYACPECGKSFSRSDHLAEH-QRTHTGEKPYKCPECGKSFSDKKDLTRHQ- 69
Query: 133 RKHSKGDKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLE 192
R H+ G+KP+KC C ++ + L+ H + H G+ + C C + F H
Sbjct: 70 RTHT-GEKPYKCPECGKSFSQRANLRAH-QRTHTGEKPYACPECGKSFSQLAHLRAHQRT 127
Query: 193 HHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTIL----KS 248
HT EKP+KC C R L H R H E Y C C S R L ++
Sbjct: 128 -HTGEKPYKCPECGKSFSREDNLHTH-QRTH--TGEKPYKCPECGKSFSRRDALNVHQRT 183
Query: 249 HINKK 253
H KK
Sbjct: 184 HTGKK 188
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 78/171 (45%), Gaps = 11/171 (6%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLEC 85
+ C C +++ H +H +K + C C + K + RH + H ++ +C
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQ-RTHTGEKPYKC 80
Query: 86 SLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK---GDKPH 142
C +FS +L+ H QR HT ++P++C C + +H LR H + G+KP+
Sbjct: 81 PECGKSFSQRANLRAH-QRTHTGEKPYACPECG----KSFSQLAH-LRAHQRTHTGEKPY 134
Query: 143 KCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEH 193
KC C ++ + L H + H G+ ++C C + F ++ H H
Sbjct: 135 KCPECGKSFSREDNLHTH-QRTHTGEKPYKCPECGKSFSRRDALNVHQRTH 184
Score = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 81/182 (44%), Gaps = 18/182 (9%)
Query: 164 IHQGQTRFQCSFCDRRFYFKNECTKHYLEH---HTNEKPFKCTLCSYKAKRNFELKQHIL 220
+ G+ + C C + F + H EH HT EKP+KC C ++F K+ +
Sbjct: 15 LEPGEKPYACPECGKSFSRSD----HLAEHQRTHTGEKPYKCPECG----KSFSDKKDLT 66
Query: 221 RIHQDNI-EAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKM 279
R + + E Y C C S R L++H + + +KP+ C C F + ++
Sbjct: 67 RHQRTHTGEKPYKCPECGKSFSQRANLRAH---QRTHTGEKPYACPECGKSFSQLAHLRA 123
Query: 280 HMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQK-YFCGSCNFSCTSNTDLLEHV 338
H R H G KP+KC C + + L +H R H+ +K Y C C S + L H
Sbjct: 124 HQ-RTHTGEKPYKCPECGKSFSREDNLHTHQ-RTHTGEKPYKCPECGKSFSRRDALNVHQ 181
Query: 339 QT 340
+T
Sbjct: 182 RT 183
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 53/129 (41%), Gaps = 6/129 (4%)
Query: 213 FELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFC 272
F + + + E Y C C S L H + + +KP+ C C F
Sbjct: 4 FGSSSSVAQAALEPGEKPYACPECGKSFSRSDHLAEH---QRTHTGEKPYKCPECGKSFS 60
Query: 273 KKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQK-YFCGSCNFSCTSN 331
K D+ H R H G KP+KC C + + L++H R H+ +K Y C C S +
Sbjct: 61 DKKDLTRHQ-RTHTGEKPYKCPECGKSFSQRANLRAHQ-RTHTGEKPYACPECGKSFSQL 118
Query: 332 TDLLEHVQT 340
L H +T
Sbjct: 119 AHLRAHQRT 127
>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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + EL HI +IH GQ FQC C R F + T H + HT
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 59
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FS + +L +HI R HT +PF C C +T+H +R H+
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 58
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
G+KP C IC + E K H KIH Q
Sbjct: 59 GEKPFACDICGRKFARSDERKRHT-KIHLRQ 88
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 60 EKPFACDICGRK 71
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F + ++ H+ R H G KPF+C C + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLRQ++
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLRQKD 90
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ + H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 70
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 71 KFARSDERKRHTK 83
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
Length = 90
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + +L HI +IH GQ FQC C R F + T H + HT
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 59
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FS + DL +HI R HT +PF C C +T+H +R H+
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 58
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
G+KP C IC + E K H KIH Q
Sbjct: 59 GEKPFACDICGRKFARSDERKRHT-KIHLRQ 88
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F + D+ H+ R H G KPF+C C + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 60 EKPFACDICGRK 71
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLRQ++
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLRQKD 90
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ ++ H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 70
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 71 KFARSDERKRHTK 83
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 60/116 (51%), Gaps = 3/116 (2%)
Query: 82 NLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRK-HSKGDK 140
+EC C F LK H RKHT ++PF C C K ++ H R ++ ++
Sbjct: 7 GVECPTCHKKFLSKYYLKVH-NRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQ 65
Query: 141 PHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
C++C+ T+ ++EL+ H++ H G+ ++CS C ++F K + H ++ H+
Sbjct: 66 VFTCSVCQETFRRRMELRLHMVS-HTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSG 120
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 59/114 (51%), Gaps = 5/114 (4%)
Query: 114 CNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILK--IHQGQTRF 171
C C K +KY + H+ RKH+ G+KP +C C Y K L H + +++ + F
Sbjct: 10 CPTCHKKFLSKYYLKVHN-RKHT-GEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVF 67
Query: 172 QCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQD 225
CS C F + E H + H T E P+KC+ CS + + +L+ H++++H
Sbjct: 68 TCSVCQETFRRRMELRLHMVSH-TGEMPYKCSSCSQQFMQKKDLQSHMIKLHSG 120
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 58/125 (46%), Gaps = 12/125 (9%)
Query: 167 GQTRFQCSFCDRRFYFKNECTKHYLE----HHTNEKPFKCTLCSYKAKRNFELKQHILRI 222
G + +C C ++F +K+YL+ HT EKPF+C C R L +H R
Sbjct: 4 GSSGVECPTCHKKFL-----SKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARN 58
Query: 223 HQDNIEAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMS 282
+ E + C+ C R L+ H+ ++ + P+ C C +F +K D++ HM
Sbjct: 59 CMNRSEQVFTCSVCQETFRRRMELRLHMV---SHTGEMPYKCSSCSQQFMQKKDLQSHMI 115
Query: 283 RAHYG 287
+ H G
Sbjct: 116 KLHSG 120
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 61/116 (52%), Gaps = 5/116 (4%)
Query: 56 CDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN--DRPFS 113
C C + +K Y++ H K H ++ EC C + +L +H R N ++ F+
Sbjct: 10 CPTCHKKFLSKYYLKVHNRK-HTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFT 68
Query: 114 CNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQGQT 169
C+ C + + ++ H + H+ G+ P+KC+ C ++ K +L++H++K+H G +
Sbjct: 69 CSVCQETFRRRMELRLH-MVSHT-GEMPYKCSSCSQQFMQKKDLQSHMIKLHSGPS 122
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 51 QKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTND 109
+++F+C +C+ ++ +R HM+ H + +CS C F DL+ H+ + H+
Sbjct: 64 EQVFTCSVCQETFRRRMELRLHMVS-HTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSGP 121
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 242 SRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSR--AHYGLKPFKCSFCEYK 299
S+ LK H N+KH + KPF C C + +K ++ H +R + + F CS C+
Sbjct: 19 SKYYLKVH-NRKHTGE--KPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQET 75
Query: 300 CTTKFGLKSHVTRIHSNQKYFCGSCNFSCTSNTDLLEHV 338
+ L+ H+ Y C SC+ DL H+
Sbjct: 76 FRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHM 114
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 24/52 (46%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIH 77
F C +C + LH+ SH + + C C Q K ++ HM+K+H
Sbjct: 67 FTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLH 118
>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 = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + EL HI +IH GQ FQC C R F + T H + HT
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 59
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FS + +L +HI R HT +PF C C +T+H +R H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 58
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
G+KP C IC + E K H KIH Q
Sbjct: 59 GEKPFACDICGRKFARSDERKRHT-KIHLRQ 88
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 60 EKPFACDICGRK 71
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F + ++ H+ R H G KPF+C C + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 317 QKYF-CGSCN 325
+K F C C
Sbjct: 60 EKPFACDICG 69
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLRQ++
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLRQKD 90
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ + + H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 70
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 71 KFARSDERKRHTK 83
>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 = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + EL HI +IH GQ FQC C R F + T H + HT
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 58
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 59 EKPFACDICGRKFARSDERKRH 80
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FS + +L +HI R HT +PF C C +T+H +R H+
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 57
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
G+KP C IC + E K H KIH Q
Sbjct: 58 GEKPFACDICGRKFARSDERKRHT-KIHLRQ 87
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 58
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 59 EKPFACDICGRK 70
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F + ++ H+ R H G KPF+C C + L +H+ R H+
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 58
Query: 317 QKYF 320
+K F
Sbjct: 59 EKPF 62
Score = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQ 80
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLRQ
Sbjct: 34 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLRQ 87
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ + + H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 69
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 70 KFARSDERKRHTK 82
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + EL HI +IH GQ FQC C R F + T H + HT
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 59
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 44/88 (50%), Gaps = 6/88 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FS + +L +HI R HT +PF C C +T+H +R H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 58
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIH 165
G+KP C IC + E K H KIH
Sbjct: 59 GEKPFACDICGRKFARSDERKRHT-KIH 85
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 60 EKPFACDICGRK 71
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F + ++ H+ R H G KPF+C C + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLR 79
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLR
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLR 87
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ + + H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 70
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 71 KFARSDERKRHTK 83
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 43/82 (52%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + L HI +IH GQ FQC C R F + T H + HT
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 59
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 44/91 (48%), Gaps = 6/91 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FS + L +HI R HT +PF C C +T+H +R H+
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 58
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
G+KP C IC + E K H KIH Q
Sbjct: 59 GEKPFACDICGRKFARSDERKRHT-KIHLRQ 88
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 60 EKPFACDICGRK 71
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F + + H+ R H G KPF+C C + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLRQ++
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLRQKD 90
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ ++ H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 70
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 71 KFARSDERKRHTK 83
>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 = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 136 SKGDKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHT 195
S PHKC +C + K +LK H ++ H G ++C CD + KH L H+
Sbjct: 3 SGSSGPHKCEVCGKCFSRKDKLKTH-MRCHTGVKPYKCKTCDYAAADSSSLNKH-LRIHS 60
Query: 196 NEKPFKCTLCSYKAKRNFELKQHILRIHQDN 226
+E+PFKC +C Y ++ + +L H LR H +
Sbjct: 61 DERPFKCQICPYASRNSSQLTVH-LRSHTGD 90
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 52/97 (53%), Gaps = 3/97 (3%)
Query: 255 ANDEDKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIH 314
++ P CE C F +K +K HM R H G+KP+KC C+Y L H+ RIH
Sbjct: 2 SSGSSGPHKCEVCGKCFSRKDKLKTHM-RCHTGVKPYKCKTCDYAAADSSSLNKHL-RIH 59
Query: 315 SNQKYF-CGSCNFSCTSNTDLLEHVQTNHIIVGESSS 350
S+++ F C C ++ +++ L H++++ G SS
Sbjct: 60 SDERPFKCQICPYASRNSSQLTVHLRSHTGDSGPSSG 96
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 46/90 (51%), Gaps = 11/90 (12%)
Query: 56 CDLCEYQTNTKIYIRRHMLKIHLR----QRNLECSLCDSTFSDNMDLKKHIQRKHTNDRP 111
C++C K + R+ LK H+R + +C CD +D+ L KH+ R H+++RP
Sbjct: 11 CEVC-----GKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHL-RIHSDERP 64
Query: 112 FSCNFCDYKSKTKYDITSHSLRKHSKGDKP 141
F C C Y S+ +T H LR H+ P
Sbjct: 65 FKCQICPYASRNSSQLTVH-LRSHTGDSGP 93
Score = 35.0 bits (79), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 2/82 (2%)
Query: 28 CILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSL 87
C +C + + H+ H K + C C+Y + +H L+IH +R +C +
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKH-LRIHSDERPFKCQI 69
Query: 88 CDSTFSDNMDLKKHIQRKHTND 109
C ++ L H+ R HT D
Sbjct: 70 CPYASRNSSQLTVHL-RSHTGD 90
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 42/116 (36%), Gaps = 32/116 (27%)
Query: 84 ECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKPHK 143
+C +C FS LK H+ R HT +P+ C CDY + S SL KH
Sbjct: 10 KCEVCGKCFSRKDKLKTHM-RCHTGVKPYKCKTCDYAA-----ADSSSLNKH-------- 55
Query: 144 CTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKP 199
L+IH + F+C C ++ T H H + P
Sbjct: 56 ------------------LRIHSDERPFKCQICPYASRNSSQLTVHLRSHTGDSGP 93
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 7/92 (7%)
Query: 196 NEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSHINKKHA 255
+ P KC +C R +LK H +R H Y C CDY + + L H+
Sbjct: 5 SSGPHKCEVCGKCFSRKDKLKTH-MRCHTG--VKPYKCKTCDYAAADSSSLNKHLR---I 58
Query: 256 NDEDKPFTCEHCDSKFCKKYDMKMHMSRAHYG 287
+ +++PF C+ C + +H+ R+H G
Sbjct: 59 HSDERPFKCQICPYASRNSSQLTVHL-RSHTG 89
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLR 79
+ C C+Y A + ++ HL H +++ F C +C Y + L +HLR
Sbjct: 37 YKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPYASRNS-----SQLTVHLR 85
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 43/82 (52%), Gaps = 4/82 (4%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + L HI +IH GQ FQC C R F + T H + HT
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTG 59
Query: 197 EKPFKCTLCSYKAKRNFELKQH 218
EKPF C +C K R+ E K+H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 46/91 (50%), Gaps = 6/91 (6%)
Query: 80 QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSK 137
+R C + CD FSD+ +L +HI R HT +PF C C +T+H +R H+
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT- 58
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
G+KP C IC + E K H KIH Q
Sbjct: 59 GEKPFACDICGRKFARSDERKRHT-KIHLRQ 88
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + + RH ++IH Q+ +C +C FS + L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 109 DRPFSCNFCDYK 120
++PF+C+ C K
Sbjct: 60 EKPFACDICGRK 71
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F ++ H+ R H G KPF+C C + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + +++ H+ +H +K F+CD+C + +RH KIHLRQ++
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHT-KIHLRQKD 90
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 31 CNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDS 90
C+ + N+ H+ H QK F C +C + ++ H ++ H ++ C +C
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGR 70
Query: 91 TFSDNMDLKKHIQ 103
F+ + + K+H +
Sbjct: 71 KFARSDERKRHTK 83
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 42/62 (67%), Gaps = 1/62 (1%)
Query: 194 HTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSHINKK 253
H+ EKP++C +C + ++ +K HIL+ H +N+ A++HC +CD + + ++ L H+ K+
Sbjct: 10 HSGEKPYECYICHARFTQSGTMKMHILQKHTENV-AKFHCPHCDTVIARKSDLGVHLRKQ 68
Query: 254 HA 255
H+
Sbjct: 69 HS 70
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 131 SLRKHSKGDKPHKCTICESTYLTKVELKNHILKIH-QGQTRFQCSFCDRRFYFKNECTKH 189
S R HS G+KP++C IC + + +K HIL+ H + +F C CD K++ H
Sbjct: 6 SGRTHS-GEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVH 64
Query: 190 YLEHHTNEKP 199
+ H+ P
Sbjct: 65 LRKQHSYSGP 74
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 75 KIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHT-NDRPFSCNFCDYKSKTKYDITSHSLR 133
+ H ++ EC +C + F+ + +K HI +KHT N F C CD K D+ H +
Sbjct: 8 RTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRK 67
Query: 134 KHS 136
+HS
Sbjct: 68 QHS 70
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 282 SRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN--QKYFCGSCNFSCTSNTDLLEHVQ 339
R H G KP++C C + T +K H+ + H+ K+ C C+ +DL H++
Sbjct: 7 GRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLR 66
Query: 340 TNHIIVGESSS 350
H G SS
Sbjct: 67 KQHSYSGPSSG 77
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 228 EAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSRAH 285
E Y C C + +K HI +KH + K F C HCD+ +K D+ +H+ + H
Sbjct: 13 EKPYECYICHARFTQSGTMKMHILQKHTENVAK-FHCPHCDTVIARKSDLGVHLRKQH 69
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 47 SHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQ-RNLECSLCDSTFSDNMDLKKHIQRK 105
+H +K + C +C + ++ H+L+ H C CD+ + DL H++++
Sbjct: 9 THSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQ 68
Query: 106 HTNDRPFS 113
H+ P S
Sbjct: 69 HSYSGPSS 76
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%)
Query: 104 RKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILK 163
R H+ ++P+ C C + + H L+KH++ C C++ K +L H+ K
Sbjct: 8 RTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRK 67
Query: 164 IH 165
H
Sbjct: 68 QH 69
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 70/149 (46%), Gaps = 16/149 (10%)
Query: 88 CDSTFSDNMDLKKHIQRKHTND--RPFSCNFCD-----YKSKTKYDITSHSLRKHSKGDK 140
C F L HI +H + + F C++ K +Y + H +R+H+ G+K
Sbjct: 9 CSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVH-MRRHT-GEK 66
Query: 141 PHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCS--FCDRRFYFKNECTKHYLEHHTN 196
PHKCT C +Y LK H L+ H G+ + C C + F ++ KH H+N
Sbjct: 67 PHKCTFEGCRKSYSRLENLKTH-LRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSN 125
Query: 197 EKPFKCTL--CSYKAKRNFELKQHILRIH 223
EKP+ C L C+ + L++H+ +H
Sbjct: 126 EKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 66/148 (44%), Gaps = 15/148 (10%)
Query: 31 CNYHAENFENIYLHLPS---HFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLE--- 84
C+ ++ E + H+ S H E+K F C + + ++ML +H+R+ E
Sbjct: 9 CSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEKPH 68
Query: 85 -CSL--CDSTFSDNMDLKKHIQRKHTNDRPFSC--NFCDYKSKTKYDITSHSLRKHSKGD 139
C+ C ++S +LK H+ R HT ++P+ C C D H R HS +
Sbjct: 69 KCTFEGCRKSYSRLENLKTHL-RSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSN-E 126
Query: 140 KPHKCTI--CESTYLTKVELKNHILKIH 165
KP+ C + C Y L+ H+ +H
Sbjct: 127 KPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 46/132 (34%), Gaps = 40/132 (30%)
Query: 190 YLEHHTNEKPFKCTL--CSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTILK 247
++ HT EKP KCT C R LK H L+
Sbjct: 58 HMRRHTGEKPHKCTFEGCRKSYSRLENLKTH---------------------------LR 90
Query: 248 SHINKKHANDEDKPFTCEH--CDSKFCKKYDMKMHMSRAHYGLKPFKCSF--CEYKCTTK 303
SH +KP+ CEH C F D H +R H KP+ C C + T
Sbjct: 91 SHTG-------EKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDP 143
Query: 304 FGLKSHVTRIHS 315
L+ HV +H
Sbjct: 144 SSLRKHVKTVHG 155
>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 = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + K L HI +IH GQ FQC C R F + H + HT
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQQASLNAH-IRTHTG 59
Query: 197 EKPFKCTLCSYK 208
EKPF C +C K
Sbjct: 60 EKPFACDICGRK 71
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + K + H ++IH Q+ +C +C FS L HI R HT
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTH-IRIHTGQKPFQCRICMRNFSQQASLNAHI-RTHTG 59
Query: 109 DRPFSCNFCDYKSKTKYDITSHS 131
++PF+C+ C K T + T H+
Sbjct: 60 EKPFACDICGRKFATLHTRTRHT 82
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 109 DRPFSCNF--CDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQ 166
+RP++C CD + K ++ +H +R H+ G KP +C IC + + L HI + H
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTH-IRIHT-GQKPFQCRICMRNFSQQASLNAHI-RTHT 58
Query: 167 GQTRFQCSFCDRRFYFKNECTKH 189
G+ F C C R+F + T+H
Sbjct: 59 GEKPFACDICGRKFATLHTRTRH 81
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 37/64 (57%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F +K ++ H+ R H G KPF+C C + + L +H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQQASLNAHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 42/94 (44%), Gaps = 7/94 (7%)
Query: 227 IEAEYHCTY--CDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSRA 284
+E Y C CD S +T L +HI + KPF C C F ++ + H+ R
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIR---IHTGQKPFQCRICMRNFSQQASLNAHI-RT 56
Query: 285 HYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQK 318
H G KPF C C K T H T+IH QK
Sbjct: 57 HTGEKPFACDICGRKFATLHTRTRH-TKIHLRQK 89
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + ++ H+ +H +K F+CD+C + T ++ R KIHLRQ++
Sbjct: 35 FQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFAT-LHTRTRHTKIHLRQKD 90
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 176 CDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTY 235
CDRRF K H + HT +KPF+C +C + L HI R H E + C
Sbjct: 12 CDRRFSQKTNLDTH-IRIHTGQKPFQCRICMRNFSQQASLNAHI-RTHTG--EKPFACDI 67
Query: 236 CD 237
C
Sbjct: 68 CG 69
>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 = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 139 DKPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTN 196
++P+ C + C+ + K L HI +IH GQ FQC C R F +H + HT
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQHTGLNQH-IRTHTG 59
Query: 197 EKPFKCTLCSYK 208
EKPF C +C K
Sbjct: 60 EKPFACDICGRK 71
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 4/64 (6%)
Query: 259 DKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
++P+ C E CD +F +K ++ H+ R H G KPF+C C + GL H+ R H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQHTGLNQHI-RTHTG 59
Query: 317 QKYF 320
+K F
Sbjct: 60 EKPF 63
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 51 QKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTN 108
++ ++C + C+ + + K + H ++IH Q+ +C +C FS + L +HI R HT
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTH-IRIHTGQKPFQCRICMRNFSQHTGLNQHI-RTHTG 59
Query: 109 DRPFSCNFCDYKSKTKYDITSHS 131
++PF+C+ C K T + H+
Sbjct: 60 EKPFACDICGRKFATLHTRDRHT 82
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 109 DRPFSCNF--CDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQ 166
+RP++C CD + K ++ +H +R H+ G KP +C IC + L HI + H
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTH-IRIHT-GQKPFQCRICMRNFSQHTGLNQHI-RTHT 58
Query: 167 GQTRFQCSFCDRRF 180
G+ F C C R+F
Sbjct: 59 GEKPFACDICGRKF 72
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 41/94 (43%), Gaps = 7/94 (7%)
Query: 227 IEAEYHCTY--CDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSRA 284
+E Y C CD S +T L +HI + KPF C C F + + H+ R
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIR---IHTGQKPFQCRICMRNFSQHTGLNQHI-RT 56
Query: 285 HYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQK 318
H G KPF C C K T H T+IH QK
Sbjct: 57 HTGEKPFACDICGRKFATLHTRDRH-TKIHLRQK 89
Score = 34.7 bits (78), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 176 CDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTY 235
CDRRF K H + HT +KPF+C +C ++ L QHI R H E + C
Sbjct: 12 CDRRFSQKTNLDTH-IRIHTGQKPFQCRICMRNFSQHTGLNQHI-RTHTG--EKPFACDI 67
Query: 236 CD 237
C
Sbjct: 68 CG 69
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRN 82
F C +C + + H+ +H +K F+CD+C + T ++ R KIHLRQ++
Sbjct: 35 FQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFAT-LHTRDRHTKIHLRQKD 90
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 4/55 (7%)
Query: 289 KPFKCSF--CEYKCTTKFGLKSHVTRIHSNQKYF-CGSCNFSCTSNTDLLEHVQT 340
+P+ C C+ + + K L +H+ RIH+ QK F C C + + +T L +H++T
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQHTGLNQHIRT 56
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 41/118 (34%), Positives = 60/118 (50%), Gaps = 10/118 (8%)
Query: 107 TNDRPFSCNF--CDYKSKTKYDITSHSLRKHSKGDKPHKCTI--CESTYLTKVELKNHIL 162
+ RPF C + C+ + + HS RKH+ G+KP++C CE + +LK H
Sbjct: 2 SEKRPFMCAYPGCNKRYFKLSHLQMHS-RKHT-GEKPYQCDFKDCERRFSRSDQLKRHQR 59
Query: 163 KIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQH 218
+ H G FQC C R+F +++ K + HT EKPF C C K R+ EL +H
Sbjct: 60 R-HTGVKPFQCKTCQRKFS-RSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 57/111 (51%), Gaps = 13/111 (11%)
Query: 236 CDYI-CSSRTILKSHI---NKKHANDEDKPFTCE--HCDSKFCKKYDMKMHMSRAHYGLK 289
C Y C+ R SH+ ++KH + KP+ C+ C+ +F + +K H R H G+K
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTGE--KPYQCDFKDCERRFSRSDQLKRHQRR-HTGVK 65
Query: 290 PFKCSFCEYKCTTKFGLKSHVTRIHSNQKYF---CGSCNFSCTSNTDLLEH 337
PF+C C+ K + LK+H TR H+ +K F SC + +L+ H
Sbjct: 66 PFQCKTCQRKFSRSDHLKTH-TRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 6/95 (6%)
Query: 26 FICIL--CNYHAENFENIYLHLPSHFEQKLFSCDL--CEYQTNTKIYIRRHMLKIHLRQR 81
F+C CN ++ +H H +K + CD CE + + ++RH + H +
Sbjct: 7 FMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRR-HTGVK 65
Query: 82 NLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNF 116
+C C FS + LK H R HT ++PFSC +
Sbjct: 66 PFQCKTCQRKFSRSDHLKTHT-RTHTGEKPFSCRW 99
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 53/111 (47%), Gaps = 11/111 (9%)
Query: 58 LCEYQTNTKIYIRRHMLKIHLR----QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRP 111
+C Y K Y + L++H R ++ +C C+ FS + LK+H QR+HT +P
Sbjct: 8 MCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRH-QRRHTGVKP 66
Query: 112 FSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTI--CESTYLTKVELKNH 160
F C C K + +H+ R H+ G+KP C C+ + EL H
Sbjct: 67 FQCKTCQRKFSRSDHLKTHT-RTHT-GEKPFSCRWPSCQKKFARSDELVRH 115
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 42/91 (46%), Gaps = 7/91 (7%)
Query: 147 CESTYLTKVELKNHILKIHQGQTRFQCSF--CDRRFYFKNECTKHYLEHHTNEKPFKCTL 204
C Y L+ H K H G+ +QC F C+RRF ++ +H H T KPF+C
Sbjct: 14 CNKRYFKLSHLQMHSRK-HTGEKPYQCDFKDCERRFSRSDQLKRHQRRH-TGVKPFQCKT 71
Query: 205 CSYKAKRNFELKQHILRIHQDNIEAEYHCTY 235
C K R+ LK H R H E + C +
Sbjct: 72 CQRKFSRSDHLKTHT-RTH--TGEKPFSCRW 99
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 258 EDKPFTCEH--CDSKFCKKYDMKMHMSRAHYGLKPFKCSF--CEYKCTTKFGLKSHVTRI 313
E +PF C + C+ ++ K ++MH SR H G KP++C F CE + + LK H R
Sbjct: 3 EKRPFMCAYPGCNKRYFKLSHLQMH-SRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRH 61
Query: 314 HSNQKYFCGSCNFSCTSNTDLLEHVQT 340
+ + C +C + + L H +T
Sbjct: 62 TGVKPFQCKTCQRKFSRSDHLKTHTRT 88
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 139 DKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEK 198
+KP+KC C ++ L+ H + H G+ ++C C + F ++ KH HT EK
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKH-QRTHTGEKPYKCPECGKSFSQSSDLQKHQRT-HTGEK 59
Query: 199 PFKCTLCSYKAKRNFELKQHILRIHQD 225
P+KC C R+ L +H R HQ+
Sbjct: 60 PYKCPECGKSFSRSDHLSRH-QRTHQN 85
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 80 QRNLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGD 139
++ +C C +FS + +L+KH QR HT ++P+ C C D+ H R H+ G+
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKH-QRTHTGEKPYKCPECGKSFSQSSDLQKHQ-RTHT-GE 58
Query: 140 KPHKCTICESTYLTKVELKNHILKIHQ 166
KP+KC C ++ L H + HQ
Sbjct: 59 KPYKCPECGKSFSRSDHLSRH-QRTHQ 84
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 3/85 (3%)
Query: 51 QKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTNDR 110
+K + C C + +++H + H ++ +C C +FS + DL+KH QR HT ++
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKHQ-RTHTGEKPYKCPECGKSFSQSSDLQKH-QRTHTGEK 59
Query: 111 PFSCNFCDYKSKTKYDITSHSLRKH 135
P+ C C KS ++ D S R H
Sbjct: 60 PYKCPECG-KSFSRSDHLSRHQRTH 83
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 3/83 (3%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQK 318
+KP+ C C F + +++ H R H G KP+KC C + L+ H R H+ +K
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKHQ-RTHTGEKPYKCPECGKSFSQSSDLQKH-QRTHTGEK 59
Query: 319 -YFCGSCNFSCTSNTDLLEHVQT 340
Y C C S + + L H +T
Sbjct: 60 PYKCPECGKSFSRSDHLSRHQRT 82
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 43/88 (48%), Gaps = 9/88 (10%)
Query: 109 DRPFSCNFCDYKSKTKYDITSHSLRKHSK---GDKPHKCTICESTYLTKVELKNHILKIH 165
++P+ C C K S +L+KH + G+KP+KC C ++ +L+ H + H
Sbjct: 2 EKPYKCPECG-----KSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKH-QRTH 55
Query: 166 QGQTRFQCSFCDRRFYFKNECTKHYLEH 193
G+ ++C C + F + ++H H
Sbjct: 56 TGEKPYKCPECGKSFSRSDHLSRHQRTH 83
Score = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 2/85 (2%)
Query: 26 FICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLEC 85
+ C C N+ H +H +K + C C + +++H + H ++ +C
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQ-RTHTGEKPYKC 63
Query: 86 SLCDSTFSDNMDLKKHIQRKHTNDR 110
C +FS + L +H QR H N +
Sbjct: 64 PECGKSFSRSDHLSRH-QRTHQNKK 87
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 8/87 (9%)
Query: 171 FQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAE 230
++C C + F + KH H T EKP+KC C ++ +L++H R H E
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTH-TGEKPYKCPECGKSFSQSSDLQKH-QRTH--TGEKP 60
Query: 231 YHCTYCDYICSSRTIL----KSHINKK 253
Y C C S L ++H NKK
Sbjct: 61 YKCPECGKSFSRSDHLSRHQRTHQNKK 87
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 56/111 (50%), Gaps = 10/111 (9%)
Query: 59 CEYQTNTKIYIRRHMLKIHL---RQRNLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCN 115
C ++ TK++ ++ HL R C+ C F ++ LK+H Q HT ++PF C
Sbjct: 8 CPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRH-QLVHTGEKPFQCT 66
Query: 116 F--CDYKSKTKYDITSHSLRKHSKGDKPHKCTI--CESTYLTKVELKNHIL 162
F C + +++ +H +R H+ GD+P+ C C + LK+HIL
Sbjct: 67 FEGCGKRFSLDFNLRTH-VRIHT-GDRPYVCPFDGCNKKFAQSTNLKSHIL 115
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 263 TCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSF--CEYKCTTKFGLKSHVTRIHSNQK-Y 319
C C F + +K H H G KPF+C+F C + + F L++HV RIH+ + Y
Sbjct: 36 VCAECGKAFVESSKLKRHQL-VHTGEKPFQCTFEGCGKRFSLDFNLRTHV-RIHTGDRPY 93
Query: 320 FCG--SCNFSCTSNTDLLEHVQT 340
C CN +T+L H+ T
Sbjct: 94 VCPFDGCNKKFAQSTNLKSHILT 116
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 8/82 (9%)
Query: 173 CSFCDRRFYFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQHILRIHQDNIEAE 230
C+ C + F ++ +H L H T EKPF+CT C + +F L+ H+ RIH +
Sbjct: 37 CAECGKAFVESSKLKRHQLVH-TGEKPFQCTFEGCGKRFSLDFNLRTHV-RIHTG--DRP 92
Query: 231 YHCTY--CDYICSSRTILKSHI 250
Y C + C+ + T LKSHI
Sbjct: 93 YVCPFDGCNKKFAQSTNLKSHI 114
>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
Length = 88
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 33/63 (52%), Gaps = 6/63 (9%)
Query: 171 FQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELK-----QHILRIHQD 225
FQC C R F + T H + HT EKPF C +C K R+ E K QHIL I +D
Sbjct: 4 FQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKRHRDIQHILPILED 62
Query: 226 NIE 228
+E
Sbjct: 63 KVE 65
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 140 KPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKH 189
KP +C IC + L HI + H G+ F C C R+F +E +H
Sbjct: 2 KPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGRKFARSDERKRH 50
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 84 ECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYK 120
+C +C FS + L HI R HT ++PF+C+ C K
Sbjct: 5 QCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGRK 40
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 110 RPFSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNH 160
+PF C C +T+H +R H+ G+KP C IC + E K H
Sbjct: 2 KPFQCRICMRNFSRSDHLTTH-IRTHT-GEKPFACDICGRKFARSDERKRH 50
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 3/89 (3%)
Query: 82 NLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKG-DK 140
+ C +C F D L +H + H+ ++P+SC C + K K D S+ +R H K
Sbjct: 7 GVACEICGKIFRDVYHLNRH-KLSHSGEKPYSCPVCGLRFKRK-DRMSYHVRSHDGSVGK 64
Query: 141 PHKCTICESTYLTKVELKNHILKIHQGQT 169
P+ C C + L HI ++H G +
Sbjct: 65 PYICQSCGKGFSRPDHLNGHIKQVHSGPS 93
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 2/90 (2%)
Query: 167 GQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDN 226
G + C C + F +H L H + EKP+ C +C + KR + H+ R H +
Sbjct: 4 GSSGVACEICGKIFRDVYHLNRHKLSH-SGEKPYSCPVCGLRFKRKDRMSYHV-RSHDGS 61
Query: 227 IEAEYHCTYCDYICSSRTILKSHINKKHAN 256
+ Y C C S L HI + H+
Sbjct: 62 VGKPYICQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 35/91 (38%), Gaps = 2/91 (2%)
Query: 136 SKGDKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHT 195
S G C IC + L H L H G+ + C C RF K+ + H H
Sbjct: 2 SSGSSGVACEICGKIFRDVYHLNRHKLS-HSGEKPYSCPVCGLRFKRKDRMSYHVRSHDG 60
Query: 196 N-EKPFKCTLCSYKAKRNFELKQHILRIHQD 225
+ KP+ C C R L HI ++H
Sbjct: 61 SVGKPYICQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 249 HINK-KHANDEDKPFTCEHCDSKFCKKYDMKMHMSRAHYG--LKPFKCSFCEYKCTTKFG 305
H+N+ K ++ +KP++C C +F +K M H+ R+H G KP+ C C +
Sbjct: 22 HLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHV-RSHDGSVGKPYICQSCGKGFSRPDH 80
Query: 306 LKSHVTRIHSN 316
L H+ ++HS
Sbjct: 81 LNGHIKQVHSG 91
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 37/93 (39%), Gaps = 11/93 (11%)
Query: 22 DSYNFICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQR 81
S C +C + ++ H SH +K +SC +C + + R+ + H+R
Sbjct: 4 GSSGVACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLR-----FKRKDRMSYHVRSH 58
Query: 82 NLE------CSLCDSTFSDNMDLKKHIQRKHTN 108
+ C C FS L HI++ H+
Sbjct: 59 DGSVGKPYICQSCGKGFSRPDHLNGHIKQVHSG 91
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQK 318
DKP+ C+ C + F K ++ H + H G KP++C+ C + LK+H TRIHS +K
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKT-VHTGEKPYRCNICGAQFNRPANLKTH-TRIHSGEK 72
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 109 DRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQGQ 168
D+P+ C+ C + K ++ SH + G+KP++C IC + + LK H +IH G+
Sbjct: 15 DKPYKCDRCQASFRYKGNLASH--KTVHTGEKPYRCNICGAQFNRPANLKTHT-RIHSGE 71
Score = 35.4 bits (80), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 171 FQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQD 225
++C C F +K H H T EKP++C +C + R LK H RIH
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVH-TGEKPYRCNICGAQFNRPANLKTHT-RIHSG 70
Score = 35.4 bits (80), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 139 DKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEK 198
DKP+KC C++++ K L +H +H G+ ++C+ C +F H H+ EK
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKT-VHTGEKPYRCNICGAQFNRPANLKTH-TRIHSGEK 72
Query: 199 P 199
P
Sbjct: 73 P 73
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 84 ECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKP 141
+C C ++F +L H + HT ++P+ CN C + ++ +H+ R HS G+KP
Sbjct: 19 KCDRCQASFRYKGNLASH-KTVHTGEKPYRCNICGAQFNRPANLKTHT-RIHS-GEKP 73
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 52 KLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTNDRP 111
K + CD C+ K + H +H ++ C++C + F+ +LK H R H+ ++P
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKT-VHTGEKPYRCNICGAQFNRPANLKTHT-RIHSGEKP 73
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 228 EAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSRAHYG 287
+ Y C C + L SH K + +KP+ C C ++F + ++K H +R H G
Sbjct: 15 DKPYKCDRCQASFRYKGNLASH---KTVHTGEKPYRCNICGAQFNRPANLKTH-TRIHSG 70
Query: 288 LKP 290
KP
Sbjct: 71 EKP 73
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 37/66 (56%), Gaps = 7/66 (10%)
Query: 59 CEYQTNTKIYIRRHMLKIHLR----QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDRPF 112
C+Y TK+Y + LK HLR ++ +C+ CD F+ + +L +H RKHT +PF
Sbjct: 18 CDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHY-RKHTGAKPF 76
Query: 113 SCNFCD 118
C C+
Sbjct: 77 QCGVCN 82
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 38/83 (45%), Gaps = 6/83 (7%)
Query: 116 FCDYKSKTKYDITSHSLRKHSK---GDKPHKCTI--CESTYLTKVELKNHILKIHQGQTR 170
+CDY TK S L+ H + G+KP+KCT C+ + EL H K H G
Sbjct: 17 YCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRK-HTGAKP 75
Query: 171 FQCSFCDRRFYFKNECTKHYLEH 193
FQC C+R F + H H
Sbjct: 76 FQCGVCNRSFSRSDHLALHMKRH 98
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 235 YCDYICSSRTILKSHINKKH--ANDEDKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKP 290
YCDY ++ KS K H + +KP+ C E CD +F + ++ H R H G KP
Sbjct: 17 YCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHY-RKHTGAKP 75
Query: 291 FKCSFC 296
F+C C
Sbjct: 76 FQCGVC 81
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 41/107 (38%), Gaps = 36/107 (33%)
Query: 179 RFYFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQHILRIHQDNIEAEYHCTYC 236
+ Y K+ K +L HT EKP+KCT C ++ R+ EL +H
Sbjct: 25 KVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHY----------------- 67
Query: 237 DYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSR 283
+KH KPF C C+ F + + +HM R
Sbjct: 68 ---------------RKHTG--AKPFQCGVCNRSFSRSDHLALHMKR 97
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 267 CDSKFCKKYDMKMHMSRAHYGLKPFKCSF--CEYKCTTKFGLKSHVTRIHSNQKYF-CGS 323
C + K +K H+ R H G KP+KC++ C+++ L H R H+ K F CG
Sbjct: 23 CTKVYTKSSHLKAHL-RTHTGEKPYKCTWEGCDWRFARSDELTRHY-RKHTGAKPFQCGV 80
Query: 324 CNFSCTSNTDLLEHVQ 339
CN S + + L H++
Sbjct: 81 CNRSFSRSDHLALHMK 96
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 46/88 (52%), Gaps = 4/88 (4%)
Query: 144 CTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCT 203
C +C+ +Y+ L+ H IH + ++ C +C++ F TKH + HHT E+ ++C
Sbjct: 25 CIVCKRSYVCLTSLRRH-FNIHSWEKKYPCRYCEKVFPLAEYRTKHEI-HHTGERRYQCL 82
Query: 204 LCSYKAKRNFE-LKQHILRIHQDNIEAE 230
C K+ N++ + HI +H + +
Sbjct: 83 ACG-KSFINYQFMSSHIKSVHSQDPSGD 109
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 1/90 (1%)
Query: 20 LDDSYNFICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLR 79
+D +ICI+C ++ H H +K + C CE Y +H + H
Sbjct: 17 VDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIH-HTG 75
Query: 80 QRNLECSLCDSTFSDNMDLKKHIQRKHTND 109
+R +C C +F + + HI+ H+ D
Sbjct: 76 ERRYQCLACGKSFINYQFMSSHIKSVHSQD 105
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 3/82 (3%)
Query: 82 NLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKP 141
+ +C +C +F + L H+ H++ RP+ C +C + K D+ H+ G+KP
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLI-HSDTRPYPCQYCGKRFHQKSDMKKHTFIH--TGEKP 57
Query: 142 HKCTICESTYLTKVELKNHILK 163
HKC +C + L H K
Sbjct: 58 HKCQVCGKAFSQSSNLITHSRK 79
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 144 CTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCT 203
C IC ++ L H+L IH + C +C +RF+ K++ KH HT EKP KC
Sbjct: 4 CKICGKSFKRSSTLSTHLL-IHSDTRPYPCQYCGKRFHQKSDMKKHTFI-HTGEKPHKCQ 61
Query: 204 LCSYKAKRNFELKQH 218
+C ++ L H
Sbjct: 62 VCGKAFSQSSNLITH 76
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 2/84 (2%)
Query: 25 NFICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLE 84
+F C +C + + HL H + + + C C + + K +++H IH ++ +
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTF-IHTGEKPHK 59
Query: 85 CSLCDSTFSDNMDLKKHIQRKHTN 108
C +C FS + +L H RKHT
Sbjct: 60 CQVCGKAFSQSSNLITH-SRKHTG 82
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 35/83 (42%), Gaps = 3/83 (3%)
Query: 54 FSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTNDRPFS 113
F C +C + H+L IH R C C F D+KKH HT ++P
Sbjct: 2 FDCKICGKSFKRSSTLSTHLL-IHSDTRPYPCQYCGKRFHQKSDMKKHT-FIHTGEKPHK 59
Query: 114 CNFCDYKSKTKYDITSHSLRKHS 136
C C ++ +HS RKH+
Sbjct: 60 CQVCGKAFSQSSNLITHS-RKHT 81
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 257 DEDKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFC 296
+ +P+ C++C +F +K DMK H + H G KP KC C
Sbjct: 25 SDTRPYPCQYCGKRFHQKSDMKKH-TFIHTGEKPHKCQVC 63
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 4/82 (4%)
Query: 171 FQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAE 230
F C C + F + + H L H++ +P+ C C + + ++K+H IH E
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLI-HSDTRPYPCQYCGKRFHQKSDMKKHTF-IHTG--EKP 57
Query: 231 YHCTYCDYICSSRTILKSHINK 252
+ C C S + L +H K
Sbjct: 58 HKCQVCGKAFSQSSNLITHSRK 79
>pdb|3UK3|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|3UK3|D Chain D, Crystal Structure Of Znf217 Bound To Dna
pdb|4F2J|C Chain C, Crystal Structure Of Znf217 Bound To Dna, P6522 Crystal
Form
pdb|4IS1|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|4IS1|D Chain D, Crystal Structure Of Znf217 Bound To Dna
Length = 57
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 264 CEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIH 314
C +C F Y + +H+ R H G KP+KC FCEY K L+ H+ R H
Sbjct: 7 CSYCGKFFRSNYYLNIHL-RTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 84 ECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKH 135
ECS C F N L H+ R HT ++P+ C FC+Y + K + H R H
Sbjct: 6 ECSYCGKFFRSNYYLNIHL-RTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 167 GQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQ 224
G + +CS+C + F+ N +L HT EKP+KC C Y A + L+ H+ R H+
Sbjct: 1 GSSSRECSYCGK-FFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 114 CNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQ 166
C++C ++ Y + H LR H+ G+KP+KC CE K L+ H+ + H+
Sbjct: 7 CSYCGKFFRSNYYLNIH-LRTHT-GEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 31 CNYHAENFENIY---LHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIH 77
C+Y + F + Y +HL +H +K + C+ CEY K +R H+ + H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 201 KCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSHINKKH 254
+C+ C + N+ L H LR H E Y C +C+Y + +T L+ H+ + H
Sbjct: 6 ECSYCGKFFRSNYYLNIH-LRTHTG--EKPYKCEFCEYAAAQKTSLRYHLERHH 56
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 233 CTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSRAH 285
C+YC S L H+ + +KP+ CE C+ +K ++ H+ R H
Sbjct: 7 CSYCGKFFRSNYYLNIHLR---THTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 171 FQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQDNI 227
F C C R F + +HY HTNEKP+ C LC+ R L +H +IH N+
Sbjct: 3 FVCEVCTRAFARQEHLKRHY-RSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSGNL 58
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 262 FTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSN 316
F CE C F ++ +K H R+H KP+ C C T + L H +IHS
Sbjct: 3 FVCEVCTRAFARQEHLKRHY-RSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSG 56
Score = 35.0 bits (79), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 85 CSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHS 136
C +C F+ LK+H R HTN++P+ C C+ + + H+ + HS
Sbjct: 5 CEVCTRAFARQEHLKRHY-RSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHS 55
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 25/53 (47%)
Query: 25 NFICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIH 77
+F+C +C E++ H SH +K + C LC + + RH KIH
Sbjct: 2 SFVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 54 FSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTND 109
F C++C + +++RH + H ++ C LC+ F+ L +H Q+ H+ +
Sbjct: 3 FVCEVCTRAFARQEHLKRHY-RSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSGN 57
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 294 SFCEYKCTTKFGLKSHVTR---IHSNQK-YFCGSCNFSCTSNTDLLEHVQTNH 342
SF CT F + H+ R H+N+K Y CG CN + T L+ H Q H
Sbjct: 2 SFVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 59/123 (47%), Gaps = 16/123 (13%)
Query: 88 CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKS--------KTKYDITSHSLRKHSKGD 139
CD TFS +L H+ +H + + C ++ K KY + +H +R H+ G+
Sbjct: 31 CDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNH-IRVHT-GE 88
Query: 140 KPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSF--CDRRFYFKNECTKHYLEHHT 195
KP C C + LK H + H G+ F+C F CDRRF ++ KH + HT
Sbjct: 89 KPFPCPFPGCGKIFARSENLKIH-KRTHTGEKPFKCEFEGCDRRFANSSDRKKH-MHVHT 146
Query: 196 NEK 198
++K
Sbjct: 147 SDK 149
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 54/113 (47%), Gaps = 11/113 (9%)
Query: 117 CDYKSKTKYDITSHSLRKHSKGDKPH-------KCTICESTYLTKVELKNHILKIHQGQT 169
CD T +++ +H +H G + + +C ++ K +L NHI ++H G+
Sbjct: 31 CDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHI-RVHTGEK 89
Query: 170 RFQCSFCD-RRFYFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQHI 219
F C F + + ++E K + HT EKPFKC C + + + K+H+
Sbjct: 90 PFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHM 142
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 6/87 (6%)
Query: 214 ELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSH---INKKHANDEDKPFTCE--HCD 268
EL H+ H E H Y + K+ +N + +KPF C C
Sbjct: 40 ELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKPFPCPFPGCG 99
Query: 269 SKFCKKYDMKMHMSRAHYGLKPFKCSF 295
F + ++K+H R H G KPFKC F
Sbjct: 100 KIFARSENLKIH-KRTHTGEKPFKCEF 125
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 15/97 (15%)
Query: 25 NFICIL--CNYHAENFENIYL---HLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLR 79
N +C C ++F+ Y H+ H +K F C + KI+ R LKIH R
Sbjct: 57 NHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKPFPCP---FPGCGKIFARSENLKIHKR 113
Query: 80 ----QRNLECSL--CDSTFSDNMDLKKHIQRKHTNDR 110
++ +C CD F+++ D KKH+ HT+D+
Sbjct: 114 THTGEKPFKCEFEGCDRRFANSSDRKKHMHV-HTSDK 149
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 25 NFICILCNYHAENFENIYLHLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLE 84
FIC C H N+ +H +H +++ ++CD+C + ++R H IH +++ +
Sbjct: 17 EFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRY-IHSKEKPFK 75
Query: 85 CSLCDSTFSDNMDLKKH 101
C C F + L H
Sbjct: 76 CQECGKGFCQSRTLAVH 92
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 3/76 (3%)
Query: 85 CSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKC 144
C C F+ + +L H +R HT++RP++C+ C + + + H HSK +KP KC
Sbjct: 20 CKFCGRHFTKSYNLLIH-ERTHTDERPYTCDICHKAFRRQDHLRDHRY-IHSK-EKPFKC 76
Query: 145 TICESTYLTKVELKNH 160
C + L H
Sbjct: 77 QECGKGFCQSRTLAVH 92
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 6/87 (6%)
Query: 196 NEKPFKCTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSHINKKHA 255
+K F C C +++ L H R H D E Y C C + L+ H ++
Sbjct: 14 TKKEFICKFCGRHFTKSYNLLIH-ERTHTD--ERPYTCDICHKAFRRQDHLRDH---RYI 67
Query: 256 NDEDKPFTCEHCDSKFCKKYDMKMHMS 282
+ ++KPF C+ C FC+ + +H +
Sbjct: 68 HSKEKPFKCQECGKGFCQSRTLAVHKT 94
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 260 KPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIHSNQKY 319
K F C+ C F K Y++ +H R H +P+ C C + L+ H IHS +K
Sbjct: 16 KEFICKFCGRHFTKSYNLLIH-ERTHTDERPYTCDICHKAFRRQDHLRDHRY-IHSKEKP 73
Query: 320 F-CGSCNFS-CTSNTDLLE---HVQTN 341
F C C C S T + H+QT+
Sbjct: 74 FKCQECGKGFCQSRTLAVHKTLHMQTS 100
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 112 FSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQGQTRF 171
F C FC Y++ H R H+ ++P+ C IC + + L++H IH + F
Sbjct: 18 FICKFCGRHFTKSYNLLIHE-RTHT-DERPYTCDICHKAFRRQDHLRDHRY-IHSKEKPF 74
Query: 172 QCSFCDRRF 180
+C C + F
Sbjct: 75 KCQECGKGF 83
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 59 CEYQTNTKIYIRRHMLKIHLRQRNLE------CSLCDSTFSDNMDLKKHIQRKHTNDRPF 112
C+Y K Y + LK HLR E C F+ + +L +H RKHT RPF
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHY-RKHTGHRPF 67
Query: 113 SCNFCD 118
C CD
Sbjct: 68 QCQKCD 73
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 236 CDYICSSRTILKSHINKKH--ANDEDKPFTCE--HCDSKFCKKYDMKMHMSRAHYGLKPF 291
CDY +T KS K H + +KP+ C+ C KF + ++ H R H G +PF
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHY-RKHTGHRPF 67
Query: 292 KCSFCE 297
+C C+
Sbjct: 68 QCQKCD 73
Score = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 39/105 (37%), Gaps = 36/105 (34%)
Query: 181 YFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDY 238
Y K+ K +L HT EKP+ C C +K R+ EL +H
Sbjct: 18 YTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHY------------------- 58
Query: 239 ICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSR 283
+KH +PF C+ CD F + + +HM R
Sbjct: 59 -------------RKHTGH--RPFQCQKCDRAFSRSDHLALHMKR 88
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 33/70 (47%), Gaps = 8/70 (11%)
Query: 117 CDYKSKTK-YDITSH---SLRKHSKGDKPHKCTI--CESTYLTKVELKNHILKIHQGQTR 170
CDY K Y +SH LR H+ G+KP+ C C + EL H K H G
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHT-GEKPYHCDWDGCGWKFARSDELTRHYRK-HTGHRP 66
Query: 171 FQCSFCDRRF 180
FQC CDR F
Sbjct: 67 FQCQKCDRAF 76
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 59 CEYQTNTKIYIRRHMLKIHLRQRNLE------CSLCDSTFSDNMDLKKHIQRKHTNDRPF 112
C+Y K Y + LK HLR E C F+ + +L +H RKHT RPF
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHY-RKHTGHRPF 66
Query: 113 SCNFCD 118
C CD
Sbjct: 67 QCQKCD 72
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 236 CDYICSSRTILKSHINKKH--ANDEDKPFTCE--HCDSKFCKKYDMKMHMSRAHYGLKPF 291
CDY +T KS K H + +KP+ C+ C KF + ++ H R H G +PF
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHY-RKHTGHRPF 66
Query: 292 KCSFCE 297
+C C+
Sbjct: 67 QCQKCD 72
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 39/105 (37%), Gaps = 36/105 (34%)
Query: 181 YFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDY 238
Y K+ K +L HT EKP+ C C +K R+ EL +H
Sbjct: 17 YTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHY------------------- 57
Query: 239 ICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSR 283
+KH +PF C+ CD F + + +HM R
Sbjct: 58 -------------RKHTGH--RPFQCQKCDRAFSRSDHLALHMKR 87
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 33/70 (47%), Gaps = 8/70 (11%)
Query: 117 CDYKSKTK-YDITSH---SLRKHSKGDKPHKCTI--CESTYLTKVELKNHILKIHQGQTR 170
CDY K Y +SH LR H+ G+KP+ C C + EL H K H G
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHT-GEKPYHCDWDGCGWKFARSDELTRHYRK-HTGHRP 65
Query: 171 FQCSFCDRRF 180
FQC CDR F
Sbjct: 66 FQCQKCDRAF 75
>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 = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 176 CDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHI 219
CDRRF +E T+H + HT +KPF+C +C R+ L HI
Sbjct: 27 CDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI 69
Score = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 140 KPHKCTI--CESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEH 193
+P+ C + C+ + EL HI +IH GQ FQC C R F + T H H
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 260 KPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHV 310
+P+ C E CD +F + ++ H+ R H G KPF+C C + L +H+
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHI 69
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 88 CDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHS 136
CD FS + +L +HI R HT +PF C C +T+H +R H+
Sbjct: 27 CDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHT 73
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 136 SKGDKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHT 195
S GDK + C C ++ K + H + +H G + C C ++F K+ H ++ HT
Sbjct: 5 SSGDKLYPCQ-CGKSFTHKSQRDRH-MSMHLGLRPYGCGVCGKKFKMKHHLVGH-MKIHT 61
Query: 196 NEKPFKCTLCS 206
KP++C +C+
Sbjct: 62 GIKPYECNICA 72
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 138 GDKPHKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKN-------ECTKHY 190
G +P+ C +C + K L H +KIH G ++C+ C +RF +++ CTK Y
Sbjct: 34 GLRPYGCGVCGKKFKMKHHLVGH-MKIHTGIKPYECNICAKRFMWRDSFHRHVTSCTKSY 92
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 260 KPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVT 311
+P+ C C KF K+ + HM + H G+KP++C+ C + + HVT
Sbjct: 36 RPYGCGVCGKKFKMKHHLVGHM-KIHTGIKPYECNICAKRFMWRDSFHRHVT 86
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 255 ANDEDKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTRIH 314
+ DK + C+ C F K HMS H GL+P+ C C K K L H+ +IH
Sbjct: 4 GSSGDKLYPCQ-CGKSFTHKSQRDRHMS-MHLGLRPYGCGVCGKKFKMKHHLVGHM-KIH 60
Query: 315 SNQKYF 320
+ K +
Sbjct: 61 TGIKPY 66
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 52 KLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHIQRKHTNDRP 111
KL+ C C K RHM +HL R C +C F L H+ + HT +P
Sbjct: 9 KLYPCQ-CGKSFTHKSQRDRHM-SMHLGLRPYGCGVCGKKFKMKHHLVGHM-KIHTGIKP 65
Query: 112 FSCNFC 117
+ CN C
Sbjct: 66 YECNIC 71
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 44 HLPSHFEQKLFSCDLCEYQTNTKIYIRRHMLKIHLRQRNLECSLCDSTFSDNMDLKKHI 102
H+ H + + C +C + K ++ HM KIH + EC++C F +H+
Sbjct: 28 HMSMHLGLRPYGCGVCGKKFKMKHHLVGHM-KIHTGIKPYECNICAKRFMWRDSFHRHV 85
>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
Length = 190
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 53/185 (28%), Positives = 79/185 (42%), Gaps = 20/185 (10%)
Query: 170 RFQCSFCD-RRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILR---IHQD 225
R+ CSF D Y KN + +L HT EKPF C ++ F H+ R H
Sbjct: 12 RYICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCK--EEGCEKGFTSLHHLTRHSLTHTG 69
Query: 226 NIEAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTC--EHCDSKFCKKYDMKMHMSR 283
CD +++ +K H N+ H N + + C E+C F K +K+H
Sbjct: 70 EKNFTCDSDGCDLRFTTKANMKKHFNRFH-NIKICVYVCHFENCGKAFKKHNQLKVHQF- 127
Query: 284 AHYGLKPFKCSFCEYKCTTKFGLKSHVTR---IHSNQKYFC---GSCNFSCTSNTDLLEH 337
+H P++C C +F L S + R +H+ Y C SC+F + T L+H
Sbjct: 128 SHTQQLPYECP--HEGCDKRFSLPSRLKRHEKVHAG--YPCKKDDSCSFVGKTWTLYLKH 183
Query: 338 VQTNH 342
V H
Sbjct: 184 VAECH 188
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 26 FICILCNYHAENFENIYL--HLPSHFEQKLFSC--DLCEYQTNTKIYIRRHMLKIHLRQR 81
+IC + A +N L HL H +K F C + CE + ++ RH L H ++
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSL-THTGEK 71
Query: 82 NLECS--LCDSTFSDNMDLKKHIQRKH 106
N C CD F+ ++KKH R H
Sbjct: 72 NFTCDSDGCDLRFTTKANMKKHFNRFH 98
>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 = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 85 CSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCDYKSKTKYDITSHSLRK-HSK 137
C C LKKHI R HT+ RP+ C +C++ KTK ++T H K HSK
Sbjct: 4 CEECGIRXKKPSMLKKHI-RTHTDVRPYHCTYCNFSFKTKGNLTKHMKSKAHSK 56
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 202 CTLCSYKAKRNFELKQHILRIHQDNIEAEYHCTYCDYICSSRTILKSHINKK 253
C C + K+ LK+HI R H D YHCTYC++ ++ L H+ K
Sbjct: 4 CEECGIRXKKPSMLKKHI-RTHTD--VRPYHCTYCNFSFKTKGNLTKHMKSK 52
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 262 FTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHV-TRIHSNQ 317
+ CE C + K +K H+ R H ++P+ C++C + TK L H+ ++ HS +
Sbjct: 2 YICEECGIRXKKPSMLKKHI-RTHTDVRPYHCTYCNFSFKTKGNLTKHMKSKAHSKK 57
>pdb|2ELQ|A Chain A, Solution Structure Of The 14th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 35.0 bits (79), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 289 KPFKCSFCEYKCTTKFGLKSHVTRIHSNQK 318
KPFKCS CEY +K LK+H+ R HS +K
Sbjct: 8 KPFKCSLCEYATRSKSNLKAHMNR-HSTEK 36
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 195 TNEKPFKCTLCSYKAKRNFELKQHILR 221
++ KPFKC+LC Y + LK H+ R
Sbjct: 5 SSGKPFKCSLCEYATRSKSNLKAHMNR 31
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 47 SHFEQKLFSCDLCEYQTNTKIYIRRHM 73
S K F C LCEY T +K ++ HM
Sbjct: 3 SGSSGKPFKCSLCEYATRSKSNLKAHM 29
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 34.7 bits (78), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 108 NDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQG 167
++RPF CNFC + ++ H R+ G +P C C + + E+ H LK+HQ
Sbjct: 1 SERPFFCNFCGKTYRDASGLSRH--RRAHLGYRPRSCPECGKCFRDQSEVNRH-LKVHQN 57
Query: 168 QT 169
+
Sbjct: 58 KP 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 = 0.091, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 80 QRNLECSLCDSTFSDNMDLKKHIQRKHTNDRPFSCNFCD 118
+R +C C +FS + DL KH +R HT ++P+ C+ C
Sbjct: 16 RRRYKCDECGKSFSHSSDLSKH-RRTHTGEKPYKCDECG 53
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 170 RFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQ 224
R++C C + F ++ +KH H T EKP+KC C + F + H++ H+
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRTH-TGEKPYKCDECG----KAFIQRSHLIGHHR 67
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 8/68 (11%)
Query: 258 EDKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVT---RIH 314
E + + C+ C F D+ H R H G KP+KC +C F +SH+ R+H
Sbjct: 15 ERRRYKCDECGKSFSHSSDLSKHR-RTHTGEKPYKCD----ECGKAFIQRSHLIGHHRVH 69
Query: 315 SNQKYFCG 322
+ G
Sbjct: 70 TGSGPSSG 77
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 7/82 (8%)
Query: 88 CDSTFSDNMDLKKHIQRKHTNDRPFSC--NFCDYKSKTKYDITSHSLRKHSKGDKPHKC- 144
C + ++ N L+ H+ KHT ++PF C C+ + + +T HSL G+K C
Sbjct: 11 CGAAYNKNWKLQAHLS-KHTGEKPFPCKEEGCEKGFTSLHHLTRHSLT--HTGEKNFTCD 67
Query: 145 -TICESTYLTKVELKNHILKIH 165
C+ + TK +K H + H
Sbjct: 68 SDGCDLRFTTKANMKKHFNRFH 89
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 26 FICILCNYHAENFENIYL--HLPSHFEQKLFSC--DLCEYQTNTKIYIRRHMLKIHLRQR 81
+IC + A +N L HL H +K F C + CE + ++ RH L H ++
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSL-THTGEK 62
Query: 82 NLECS--LCDSTFSDNMDLKKHIQRKH 106
N C CD F+ ++KKH R H
Sbjct: 63 NFTCDSDGCDLRFTTKANMKKHFNRFH 89
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 8/74 (10%)
Query: 246 LKSHINKKHANDEDKPFTC--EHCDSKFCKKYDMKMHMSRAHYGLKPFKCS--FCEYKCT 301
L++H++K + +KPF C E C+ F + + H S H G K F C C+ + T
Sbjct: 21 LQAHLSK---HTGEKPFPCKEEGCEKGFTSLHHLTRH-SLTHTGEKNFTCDSDGCDLRFT 76
Query: 302 TKFGLKSHVTRIHS 315
TK +K H R H+
Sbjct: 77 TKANMKKHFNRFHN 90
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 37/89 (41%), Gaps = 6/89 (6%)
Query: 170 RFQCSFCD-RRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILR---IHQD 225
R+ CSF D Y KN + +L HT EKPF C ++ F H+ R H
Sbjct: 3 RYICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCK--EEGCEKGFTSLHHLTRHSLTHTG 60
Query: 226 NIEAEYHCTYCDYICSSRTILKSHINKKH 254
CD +++ +K H N+ H
Sbjct: 61 EKNFTCDSDGCDLRFTTKANMKKHFNRFH 89
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 147 CESTYLTKVELKNHILKIHQGQTRFQCSF--CDRRFYFKNECTKHYLEH 193
C TY LK H + H G+ F CS+ C+RRF +E ++H H
Sbjct: 25 CGKTYFKSSHLKAHT-RTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 181 YFKNECTKHYLEHHTNEKPFKCTL--CSYKAKRNFELKQH 218
YFK+ K + HT EKPF C+ C + R+ EL +H
Sbjct: 29 YFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRH 68
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 194 HTNEKPFKCTLCSYKAKRNFELKQHILRIHQDN-IEAEYHCTYCDYICSSRTILKSHIN 251
HT EKP+ C+ C ++ L H R H N + A + C+ C + R + H +
Sbjct: 10 HTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHAD 68
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 4/65 (6%)
Query: 128 TSHSLRKHSKGDKPHKCTICESTYLTKVELKNHILKIHQG---QTRFQCSFCDRRFYFKN 184
+ S R H+ G+KP+ C+ C+ T+ K L H + H F CS C + F +N
Sbjct: 3 SGSSGRTHT-GEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRN 61
Query: 185 ECTKH 189
+H
Sbjct: 62 TMARH 66
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAH---YGLKPFKCSFCEYKCTTKFGLKSHV 310
+KP+ C HCD F +K + MH R H + F CS C T + + H
Sbjct: 13 EKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHA 67
>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
From Human Insulinoma-Associated Protein 1 (Fragment
424-497), Northeast Structural Genomics Consortium
Target Hr7614b
Length = 85
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 142 HKCTICESTYLTKVELKNHILKIHQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNE 197
H C +C ++ +K + H+ +H Q F C +C FY T+H + H +E
Sbjct: 29 HLCPVCGESFASKGAQERHLRLLHAAQV-FPCKYCPATFYSSPGLTRHINKCHPSE 83
>pdb|1X5W|A Chain A, Solution Structure Of The C2h2 Type Zinc-Binding Domain Of
Human Zinc Finger Protein 64, Isoforms 1 And 2
Length = 70
Score = 31.2 bits (69), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 194 HTNEKPFKCTLCSYKAKRNFELKQHILRIHQD 225
H ++PFKC CS+ K+ L +H+ + H D
Sbjct: 32 HCTDRPFKCNYCSFDTKQPSNLSKHMKKFHGD 63
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 103 QRKHTNDRPFSCNFCDYKSKTKYDITSHSLRKHSKGDKP 141
+R H DRPF CN+C + +K +++ H + H P
Sbjct: 29 ERIHCTDRPFKCNYCSFDTKQPSNLSKHMKKFHGDMSGP 67
>pdb|1XKT|A Chain A, Human Fatty Acid Synthase: Structure And Substrate
Selectivity Of The Thioesterase Domain
pdb|1XKT|B Chain B, Human Fatty Acid Synthase: Structure And Substrate
Selectivity Of The Thioesterase Domain
Length = 289
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 161 ILKIHQGQTRFQCSFCDRRFYFKNECTKHY 190
I+K HQG R + SF R FY+K + Y
Sbjct: 191 IIKSHQGLDRQELSFAARSFYYKLRAAEQY 220
>pdb|2PX6|A Chain A, Crystal Structure Of The Thioesterase Domain Of Human
Fatty Acid Synthase Inhibited By Orlistat
pdb|2PX6|B Chain B, Crystal Structure Of The Thioesterase Domain Of Human
Fatty Acid Synthase Inhibited By Orlistat
Length = 316
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 161 ILKIHQGQTRFQCSFCDRRFYFKNECTKHY 190
I+K HQG R + SF R FY+K + Y
Sbjct: 209 IIKSHQGLDRQELSFAARSFYYKLRAAEQY 238
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2 Domains
Of Zinc Finger Protein 692
Length = 78
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 22/57 (38%)
Query: 232 HCTYCDYICSSRTILKSHINKKHANDEDKPFTCEHCDSKFCKKYDMKMHMSRAHYGL 288
C C + C + L H K F CE C +F K + H S++H L
Sbjct: 9 QCEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHPAL 65
Score = 28.5 bits (62), Expect = 6.1, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 136 SKGDKPHKCTICESTYLTKVELKNHILKIHQ--GQTRFQCSFCDRRFYFKNECTKHYLEH 193
S G +C IC T K L H K + RF C FC +RF + H +
Sbjct: 2 SSGSSGLQCEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKS 61
Query: 194 H 194
H
Sbjct: 62 H 62
>pdb|3TJM|A Chain A, Crystal Structure Of The Human Fatty Acid Synthase
Thioesterase Domain With An Activate Site-Specific
Polyunsaturated Fatty Acyl Adduct
Length = 283
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 161 ILKIHQGQTRFQCSFCDRRFYFKNECTKHY 190
I+K HQG R + SF R FY+K + Y
Sbjct: 187 IIKSHQGLDRQELSFAARSFYYKLRAAEQY 216
>pdb|2GHF|A Chain A, Solution Structure Of The Complete Zinc-Finger Region Of
Human Zinc-Fingers And Homeoboxes 1 (Zhx1)
Length = 102
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 35/80 (43%), Gaps = 3/80 (3%)
Query: 227 IEAEYHCTYCDYICSSRTILKSHINKKHANDE-DKPFTCEHCDSKFCKKYD-MKMHMSRA 284
+E Y C YC + + H++ +H N + + C C+ K+YD + H +
Sbjct: 15 VEGGYECKYCTFQTPDLNMFTFHVDSEHPNVVLNSSYVCVECNF-LTKRYDALSEHNLKY 73
Query: 285 HYGLKPFKCSFCEYKCTTKF 304
H G + FK + + T F
Sbjct: 74 HPGEENFKLTMVKRNNQTIF 93
>pdb|1T5Y|A Chain A, Crystal Structure Of Northeast Structural Genomics
Consortium Target Hr2118: A Human Homolog Of
Saccharomyces Cerevisiae Nip7p
Length = 190
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 44/107 (41%), Gaps = 18/107 (16%)
Query: 234 TYCDYICSSRTILKSH-INKKHAN-DEDKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPF 291
TYC + + R S I K AN DK + C KF K + ++H++ Y L P
Sbjct: 44 TYCFRLHNDRVYYVSEKIXKLAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDY-LAP- 101
Query: 292 KCSFCEYKCTTKFG-----------LKSHVTRIHSNQKYFCGSCNFS 327
+ +YK K G LKS + RI N + G +S
Sbjct: 102 ---YAKYKVWIKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYS 145
>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 = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKP 290
+KPF CE C +F + + H R H G KP
Sbjct: 10 EKPFKCEECGKRFTQNSQLHSHQ-RVHTGEKP 40
>pdb|2L7X|A Chain A, Crimean Congo Hemorrhagic Fever Gn Zinc Finger
Length = 77
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 258 EDKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCSFCEYKCTTKFGLKSHVTR 312
E KP TC C++ D +MH Y + C +C + T+ GL HVT+
Sbjct: 2 ELKPQTCTICETTPVNAIDAEMHDLNCSYNI----CPYCASRLTSD-GLARHVTQ 51
>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 = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCS 294
+KPF CE C +F + + H R H G KP S
Sbjct: 10 EKPFQCEECGKRFTQNSHLHSHQ-RVHTGEKPSGPS 44
>pdb|7ZNF|A Chain A, Alternating Zinc Fingers In The Human Male Associated
Protein Zfy: 2d Nmr Structure Of An Even Finger And
Implications For "jumping-Linker" Dna Recognition
Length = 30
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 20/30 (66%)
Query: 81 RNLECSLCDSTFSDNMDLKKHIQRKHTNDR 110
+ +C C+ F+D+ +LK HI+ KH+ ++
Sbjct: 1 KTYQCQYCEKRFADSSNLKTHIKTKHSKEK 30
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 28.5 bits (62), Expect = 6.7, Method: Composition-based stats.
Identities = 10/34 (29%), Positives = 17/34 (50%)
Query: 260 KPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKC 293
KP+ C+ C F + + H+ + H +P KC
Sbjct: 11 KPYICQSCGKGFSRPDHLNGHIKQVHTSERPHKC 44
>pdb|5ZNF|A Chain A, Alternating Zinc Fingers In The Human Male Associated
Protein Zfy: 2d Nmr Structure Of An Even Finger And
Implications For "jumping-Linker" Dna Recognition
Length = 30
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 289 KPFKCSFCEYKCTTKFGLKSHVTRIHSNQK 318
K ++C +CEY+ LK+H+ HS +K
Sbjct: 1 KTYQCQYCEYRSADSSNLKTHIKTKHSKEK 30
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKPFKCS 294
+KP+ C C F +K ++ H R H G KP S
Sbjct: 10 EKPYRCGECGKAFAQKANLTQHQ-RIHTGEKPSGPS 44
>pdb|3HUU|A Chain A, Crystal Structure Of Transcription Regulator Like Protein
From Staphylococcus Haemolyticus
pdb|3HUU|B Chain B, Crystal Structure Of Transcription Regulator Like Protein
From Staphylococcus Haemolyticus
pdb|3HUU|C Chain C, Crystal Structure Of Transcription Regulator Like Protein
From Staphylococcus Haemolyticus
pdb|3HUU|D Chain D, Crystal Structure Of Transcription Regulator Like Protein
From Staphylococcus Haemolyticus
Length = 305
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 42/105 (40%), Gaps = 7/105 (6%)
Query: 165 HQGQTRFQCSFCDRRFYFKNECTKHYLEHHTNEKPFKCTLCSYKAKRNFELKQHILRIHQ 224
H+ +T Q D F +EH NE FK N+E +I+ I
Sbjct: 73 HEVKTMIQSKSVDG-FILLYSLKDDPIEHLLNE--FKVPYLIVGKSLNYE---NIIHIDN 126
Query: 225 DNIEAEYHCTYCDYICSSRTILKSHINKKHANDEDKPFTC-EHCD 268
DNI+A Y T Y R IL + +A ED+ ++CD
Sbjct: 127 DNIDAAYQLTQYLYHLGHRHILFLQESGHYAVTEDRSVGFKQYCD 171
>pdb|2EMH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
491- 523) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 80 QRNLECSLCDSTFSDNMDLKKHIQRKHTNDRP 111
+R C++C F+D +L KH Q+ HT ++P
Sbjct: 10 ERPYICTVCGKAFTDRSNLIKH-QKIHTGEKP 40
>pdb|2YTF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
607- 639) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKP 290
+KPF C C F K ++ +H R H G KP
Sbjct: 10 EKPFECSECQKAFNTKSNLIVHQ-RTHTGEKP 40
>pdb|2YTQ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
775- 807) Of Human Zinc Finger Protein 268
Length = 46
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 259 DKPFTCEHCDSKFCKKYDMKMHMSRAHYGLKP 290
+KP+ C C F K + +HM R H G KP
Sbjct: 10 EKPYGCSECGKAFSSKSYLIIHM-RTHSGEKP 40
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
0.326 0.136 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,551,246
Number of Sequences: 62578
Number of extensions: 485762
Number of successful extensions: 2487
Number of sequences better than 100.0: 108
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 1733
Number of HSP's gapped (non-prelim): 559
length of query: 373
length of database: 14,973,337
effective HSP length: 100
effective length of query: 273
effective length of database: 8,715,537
effective search space: 2379341601
effective search space used: 2379341601
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)