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= psy12165
(537 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 = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 55/196 (28%), Positives = 75/196 (38%), Gaps = 35/196 (17%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVD 156
Y C C K +SRS HL +H R H G C C K S + L +H H
Sbjct: 22 YACPECGKSFSRSDHLAEH-QRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHT------- 73
Query: 157 EPQMNEFGESVHICHLCQKQFKQNWLLQKHKKTCKGPKRPTSPLPEPDEDGIFRCKKCVK 216
GE + C C K F Q L+ H++T G K + C +C K
Sbjct: 74 -------GEKPYKCPECGKSFSQRANLRAHQRTHTGEK-------------PYACPECGK 113
Query: 217 VFVNPDIYKKHLK-HSHTKAY-CEVCITAPGYETKVELLHHMKTEHKDNEEYKCLIPGCK 274
F + H + H+ K Y C C + ++ + LH + H + YKC P C
Sbjct: 114 SFSQLAHLRAHQRTHTGEKPYKCPECGKS---FSREDNLHTHQRTHTGEKPYKC--PECG 168
Query: 275 KYFRTKLDCQKHCREH 290
K F + H R H
Sbjct: 169 KSFSRRDALNVHQRTH 184
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 57/157 (36%), Gaps = 21/157 (13%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKE 417
PYAC C + ++EH + H GE C CG F + +L H HT
Sbjct: 21 PYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTG------ 74
Query: 418 QKPRPELPVTCDLCSKEWPSRKFMWQHLIRSHKAVAGLACGVCLKISETYEALALHLDQA 477
E P C C K + R + H R+H AC C K L H +
Sbjct: 75 -----EKPYKCPECGKSFSQRANLRAHQ-RTHTGEKPYACPECGKSFSQLAHLRAH-QRT 127
Query: 478 HPGYFAEEVDNP-TCEVCGRYHNARPKLESHLAVHVG 513
H G + P C CG+ + L +H H G
Sbjct: 128 HTG------EKPYKCPECGKSFSREDNLHTHQRTHTG 158
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 56/160 (35%), Gaps = 12/160 (7%)
Query: 252 LLHHMKTEHKDNEEYKCLIPGCKKYFRTKLDCQKHCREHKTVTSRCPTNYCNFCADLFTN 311
L H +T H + YKC P C K F K D +H R H T P C C F+
Sbjct: 37 LAEHQRT-HTGEKPYKC--PECGKSFSDKKDLTRHQRTH---TGEKPYK-CPECGKSFSQ 89
Query: 312 RKKLWLHLKSTHKDLTNCMCSACFVVEDNLSALEXXXXXXXXXXXXXPYACRICARLLGN 371
R L H + TH C C + S L PY C C +
Sbjct: 90 RANLRAHQR-THTGEKPYACPECG---KSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSR 145
Query: 372 GVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHT 410
+ H + H GE C CG F L VH HT
Sbjct: 146 EDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRTHT 185
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 41/161 (25%), Positives = 55/161 (34%), Gaps = 21/161 (13%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKE 417
PY C C + + ++ H + H GE C CG F L+ H HT
Sbjct: 49 PYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTG------ 102
Query: 418 QKPRPELPVTCDLCSKEWPSRKFMWQHLIRSHKAVAGLACGVCLKISETYEALALHLDQA 477
E P C C K + + H R+H C C K + L H +
Sbjct: 103 -----EKPYACPECGKSFSQLAHLRAHQ-RTHTGEKPYKCPECGKSFSREDNLHTH-QRT 155
Query: 478 HPGYFAEEVDNP-TCEVCGRYHNARPKLESHLAVHVGLDKS 517
H G + P C CG+ + R L H H G S
Sbjct: 156 HTG------EKPYKCPECGKSFSRRDALNVHQRTHTGKKTS 190
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 50/183 (27%), Positives = 61/183 (33%), Gaps = 28/183 (15%)
Query: 266 YKCLIPGCKKYFRTKLDCQKHCREHKTVTSRCPTNYCNFCADLFTNRKKLWLHLKSTHKD 325
Y C P C K F +H R H T P C C F+++K L H + TH
Sbjct: 22 YAC--PECGKSFSRSDHLAEHQRTH---TGEKPYK-CPECGKSFSDKKDLTRHQR-THTG 74
Query: 326 LTNCMCSAC---FVVEDNLSALEXXXXXXXXXXXXXPYACRICARLLGNGVKVSEHIKLH 382
C C F NL A + PYAC C + + H + H
Sbjct: 75 EKPYKCPECGKSFSQRANLRAHQRTHTGEK------PYACPECGKSFSQLAHLRAHQRTH 128
Query: 383 -GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFM 441
GE C CG F E L H HT E P C C K + R +
Sbjct: 129 TGEKPYKCPECGKSFSREDNLHTHQRTHTG-----------EKPYKCPECGKSFSRRDAL 177
Query: 442 WQH 444
H
Sbjct: 178 NVH 180
Score = 37.4 bits (85), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 73/202 (36%), Gaps = 38/202 (18%)
Query: 122 GHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVDEPQMNEFGESVHICHLCQKQFKQNW 181
G C C K S HL +H H GE + C C K F
Sbjct: 18 GEKPYACPECGKSFSRSDHLAEHQRTHT--------------GEKPYKCPECGKSFSDKK 63
Query: 182 LLQKHKKTCKGPKRPTSPLPEPDEDGIFRCKKCVKVFVNPDIYKKHLK-HSHTKAY-CEV 239
L +H++T G K ++C +C K F + H + H+ K Y C
Sbjct: 64 DLTRHQRTHTGEK-------------PYKCPECGKSFSQRANLRAHQRTHTGEKPYACPE 110
Query: 240 CITAPGYETKVELLHHMKTEHKDNEEYKCLIPGCKKYFRTKLDCQKHCREHKTVTSRCPT 299
C + + L H +T H + YKC P C K F + + H R H T P
Sbjct: 111 CGKS--FSQLAHLRAHQRT-HTGEKPYKC--PECGKSFSREDNLHTHQRTH---TGEKPY 162
Query: 300 NYCNFCADLFTNRKKLWLHLKS 321
C C F+ R L +H ++
Sbjct: 163 K-CPECGKSFSRRDALNVHQRT 183
Score = 35.0 bits (79), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 49/186 (26%), Positives = 71/186 (38%), Gaps = 28/186 (15%)
Query: 162 EFGESVHICHLCQKQFKQNWLLQKHKKTCKGPKRPTSPLPEPDEDGIFRCKKCVKVFVN- 220
E GE + C C K F ++ L +H++T G K ++C +C K F +
Sbjct: 16 EPGEKPYACPECGKSFSRSDHLAEHQRTHTGEK-------------PYKCPECGKSFSDK 62
Query: 221 PDIYKKHLKHSHTKAY-CEVCITAPGYETKVELLHHMKTEHKDNEEYKCLIPGCKKYFRT 279
D+ + H+ K Y C C + + + L H +T H + Y C P C K F
Sbjct: 63 KDLTRHQRTHTGEKPYKCPECGKS--FSQRANLRAHQRT-HTGEKPYAC--PECGKSFSQ 117
Query: 280 KLDCQKHCREHKTVTSRCPTNYCNFCADLFTNRKKLWLHLKSTHKDLTNCMCSAC---FV 336
+ H R H T P C C F+ L H + TH C C F
Sbjct: 118 LAHLRAHQRTH---TGEKPYK-CPECGKSFSREDNLHTHQR-THTGEKPYKCPECGKSFS 172
Query: 337 VEDNLS 342
D L+
Sbjct: 173 RRDALN 178
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 60/190 (31%), Gaps = 45/190 (23%)
Query: 5 HKEEAALSCGNCLKVFRDNLSLLKHVEEEHPTMQRRYSCQVHIIXXXXXXXXXXXXXXKH 64
H E C C K F D L +H T ++ Y C
Sbjct: 44 HTGEKPYKCPECGKSFSDKKDLTRHQRTH--TGEKPYKC--------------------- 80
Query: 65 VEEEHPTMQRRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHP 124
P + +S + + + H T Y C C K +S+ HL H R H G
Sbjct: 81 -----PECGKSFSQRANLRAHQRTH--TGEKPYACPECGKSFSQLAHLRAH-QRTHTGEK 132
Query: 125 DVTCRICSKVSSSRGHLEKHLIAHDNPNTEVDEPQMNEFGESVHICHLCQKQFKQNWLLQ 184
C C K S +L H H GE + C C K F + L
Sbjct: 133 PYKCPECGKSFSREDNLHTHQRTHT--------------GEKPYKCPECGKSFSRRDALN 178
Query: 185 KHKKTCKGPK 194
H++T G K
Sbjct: 179 VHQRTHTGKK 188
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 49/146 (33%), Gaps = 20/146 (13%)
Query: 369 LGNGVKVSEHIKLHGEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTC 428
G+ V++ GE C CG F L H HT E P C
Sbjct: 4 FGSSSSVAQAALEPGEKPYACPECGKSFSRSDHLAEHQRTHTG-----------EKPYKC 52
Query: 429 DLCSKEWPSRKFMWQHLIRSHKAVAGLACGVCLKISETYEALALHLDQAHPGYFAEEVDN 488
C K + +K + +H R+H C C K L H + H G +
Sbjct: 53 PECGKSFSDKKDLTRHQ-RTHTGEKPYKCPECGKSFSQRANLRAH-QRTHTG------EK 104
Query: 489 P-TCEVCGRYHNARPKLESHLAVHVG 513
P C CG+ + L +H H G
Sbjct: 105 PYACPECGKSFSQLAHLRAHQRTHTG 130
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 14/82 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R + HI++H G+ CR+C F + L H+ HT
Sbjct: 4 PYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEWPS 437
E P CD+C +++ +
Sbjct: 60 -------EKPFACDICGRKFAT 74
Score = 36.2 bits (82), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +S+ T+L H+ R+H G CRIC + S + L H+ H
Sbjct: 5 YACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQQASLNAHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F +H K
Sbjct: 59 ---------GEKPFACDICGRKFATLHTRTRHTK 83
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHS----EPELKVHLEE 408
P+ CRIC R ++ HI+ H GE C +CG F + K+HL +
Sbjct: 34 PFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTRTRHTKIHLRQ 88
>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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R +++ HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 60 -------EKPFACDICGRKF 72
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +SRS L +H+ R+H G CRIC + S HL H+ H
Sbjct: 5 YACPVESCDRRFSRSAELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 59 ---------GEKPFACDICGRKFARSDERKRHTK 83
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 34 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 35.4 bits (80), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S + I+ H T + C +C + +SRS HL H+ R H G C IC +
Sbjct: 14 RRFSRSAELTRHIRIH--TGQKPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGR 70
Query: 134 VSSSRGHLEKHLIAH 148
+ ++H H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R + ++ HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 60 -------EKPFACDICGRKF 72
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +S S++L +H+ R+H G CRIC + S HL H+ H
Sbjct: 5 YACPVESCDRRFSDSSNLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 59 ---------GEKPFACDICGRKFARSDERKRHTK 83
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 34 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S + I+ H T + C +C + +SRS HL H+ R H G C IC +
Sbjct: 14 RRFSDSSNLTRHIRIH--TGQKPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGR 70
Query: 134 VSSSRGHLEKHLIAH 148
+ ++H H
Sbjct: 71 KFARSDERKRHTKIH 85
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 39/93 (41%), Gaps = 11/93 (11%)
Query: 423 ELPVTCDL--CSKEWPSRKFMWQHLIRSHKAVAGLACGVCLKISETYEALALHLDQAHPG 480
E P C + C + + + +H IR H C +C++ + L H+ + H G
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRH-IRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 481 YFAEEVDNP-TCEVCGRYHNARPKLESHLAVHV 512
+ P C++CGR + + H +H+
Sbjct: 60 ------EKPFACDICGRKFARSDERKRHTKIHL 86
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R ++ HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 60 -------EKPFACDICGRKF 72
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +SRS L +H+ R+H G CRIC + S HL H+ H
Sbjct: 5 YACPVESCDRRFSRSADLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 59 ---------GEKPFACDICGRKFARSDERKRHTK 83
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 34 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S D I+ H T + C +C + +SRS HL H+ R H G C IC +
Sbjct: 14 RRFSRSADLTRHIRIH--TGQKPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGR 70
Query: 134 VSSSRGHLEKHLIAH 148
+ ++H H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R ++ HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 60 -------EKPFACDICGRKF 72
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +S+S L +H+ R+H G CRIC + S HL H+ H
Sbjct: 5 YACPVESCDRRFSQSGSLTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 59 ---------GEKPFACDICGRKFARSDERKRHTK 83
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 34 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 10/86 (11%)
Query: 72 MQRRYSCQVDTME-------AIKEHRK--TEHAMYVCDLCPKYYSRSTHLWKHVNRVHKG 122
M+R Y+C V++ + ++ H + T + C +C + +SRS HL H+ R H G
Sbjct: 1 MERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG 59
Query: 123 HPDVTCRICSKVSSSRGHLEKHLIAH 148
C IC + + ++H H
Sbjct: 60 EKPFACDICGRKFARSDERKRHTKIH 85
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R +++ HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 60 -------EKPFACDICGRKF 72
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +SRS L +H+ R+H G CRIC + S HL H+ H
Sbjct: 5 YACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 59 ---------GEKPFACDICGRKFARSDERKRHTK 83
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 34 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S + I+ H T + C +C + +SRS HL H+ R H G C IC +
Sbjct: 14 RRFSRSDELTRHIRIH--TGQKPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGR 70
Query: 134 VSSSRGHLEKHLIAH 148
+ ++H H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R +++ HI++H G+ CR+C F L H+ HT
Sbjct: 3 PYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 58
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 59 -------EKPFACDICGRKF 71
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +SRS L +H+ R+H G CRIC + S HL H+ H
Sbjct: 4 YACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 57
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 58 ---------GEKPFACDICGRKFARSDERKRHTK 82
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 33 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 84
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S + I+ H T + C +C + +SRS HL H+ R H G C IC +
Sbjct: 13 RRFSRSDELTRHIRIH--TGQKPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGR 69
Query: 134 VSSSRGHLEKHLIAH 148
+ ++H H
Sbjct: 70 KFARSDERKRHTKIH 84
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 14/80 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R +++ HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEW 435
E P CD+C +++
Sbjct: 60 -------EKPFACDICGRKF 72
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +SRS L +H+ R+H G CRIC + S HL H+ H
Sbjct: 5 YACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F ++ ++H K
Sbjct: 59 ---------GEKPFACDICGRKFARSDERKRHTK 83
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEH 409
P+ CRIC R ++ HI+ H GE C +CG F E K H + H
Sbjct: 34 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIH 85
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S + I+ H T + C +C + +SRS HL H+ R H G C IC +
Sbjct: 14 RRFSRSDELTRHIRIH--TGQKPFQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGR 70
Query: 134 VSSSRGHLEKHLIAH 148
+ ++H H
Sbjct: 71 KFARSDERKRHTKIH 85
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 14/82 (17%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PYAC + C R + HI++H G+ CR+C F L H+ HT
Sbjct: 4 PYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTG---- 59
Query: 416 KEQKPRPELPVTCDLCSKEWPS 437
E P CD+C +++ +
Sbjct: 60 -------EKPFACDICGRKFAT 74
Score = 35.8 bits (81), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHS----EPELKVHLEE 408
P+ CRIC R +++HI+ H GE C +CG F + + K+HL +
Sbjct: 34 PFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFATLHTRDRHTKIHLRQ 88
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 17/94 (18%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y C + C + +S+ T+L H+ R+H G CRIC + S L +H+ H
Sbjct: 5 YACPVESCDRRFSQKTNLDTHI-RIHTGQKPFQCRICMRNFSQHTGLNQHIRTHT----- 58
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE C +C ++F +H K
Sbjct: 59 ---------GEKPFACDICGRKFATLHTRDRHTK 83
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 3/75 (4%)
Query: 74 RRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSK 133
RR+S + + I+ H T + C +C + +S+ T L +H+ R H G C IC +
Sbjct: 14 RRFSQKTNLDTHIRIH--TGQKPFQCRICMRNFSQHTGLNQHI-RTHTGEKPFACDICGR 70
Query: 134 VSSSRGHLEKHLIAH 148
++ ++H H
Sbjct: 71 KFATLHTRDRHTKIH 85
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 40/93 (43%), Gaps = 15/93 (16%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVD 156
Y C C K +S+S++L KH R H G C C K S L+KH H
Sbjct: 5 YKCPECGKSFSQSSNLQKH-QRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHT------- 56
Query: 157 EPQMNEFGESVHICHLCQKQFKQNWLLQKHKKT 189
GE + C C K F ++ L +H++T
Sbjct: 57 -------GEKPYKCPECGKSFSRSDHLSRHQRT 82
Score = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDN 150
Y C C K +S+S+ L KH R H G C C K S HL +H H N
Sbjct: 33 YKCPECGKSFSQSSDLQKH-QRTHTGEKPYKCPECGKSFSRSDHLSRHQRTHQN 85
Score = 35.4 bits (80), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 31/87 (35%), Gaps = 12/87 (13%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKE 417
PY C C + + +H + H GE C CG F +L+ H HT
Sbjct: 4 PYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTG------ 57
Query: 418 QKPRPELPVTCDLCSKEWPSRKFMWQH 444
E P C C K + + +H
Sbjct: 58 -----EKPYKCPECGKSFSRSDHLSRH 79
Score = 32.7 bits (73), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 39/102 (38%), Gaps = 27/102 (26%)
Query: 128 CRICSKVSSSRGHLEKHLIAHDNPNTEVDEPQMNEFGESVHICHLCQKQFKQNWLLQKHK 187
C C K S +L+KH H GE + C C K F Q+ LQKH+
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHT--------------GEKPYKCPECGKSFSQSSDLQKHQ 52
Query: 188 KTCKGPKRPTSPLPEPDEDGIFRCKKCVKVFVNPDIYKKHLK 229
+T G K ++C +C K F D +H +
Sbjct: 53 RTHTGEK-------------PYKCPECGKSFSRSDHLSRHQR 81
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 40/97 (41%), Gaps = 15/97 (15%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH----GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPE 414
P+ C C + + EH + E + C VC F EL++H+ HT
Sbjct: 35 PFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVSHTG--- 91
Query: 415 TKEQKPRPELPVTCDLCSKEWPSRKFMWQHLIRSHKA 451
E+P C CS+++ +K + H+I+ H
Sbjct: 92 --------EMPYKCSSCSQQFMQKKDLQSHMIKLHSG 120
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 38/92 (41%), Gaps = 16/92 (17%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNR--VHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
+ C C K Y R +L +H R +++ TC +C + R L H+++H
Sbjct: 36 FECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVSHT----- 90
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKH 186
GE + C C +QF Q LQ H
Sbjct: 91 ---------GEMPYKCSSCSQQFMQKKDLQSH 113
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 54/134 (40%), Gaps = 20/134 (14%)
Query: 383 GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMW 442
G V C C F S+ LKVH +HT E P C C K + ++ +
Sbjct: 4 GSSGVECPTCHKKFLSKYYLKVHNRKHTG-----------EKPFECPKCGKCYFRKENLL 52
Query: 443 QHLIRS--HKAVAGLACGVCLKISETYEALALHLDQAHPGYFAEEVDNPTCEVCGRYHNA 500
+H R+ +++ C VC + L LH+ +H G + C C +
Sbjct: 53 EHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMV-SHTGEMPYK-----CSSCSQQFMQ 106
Query: 501 RPKLESHL-AVHVG 513
+ L+SH+ +H G
Sbjct: 107 KKDLQSHMIKLHSG 120
>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 = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAH 148
Y C + C + +SRS L +H+ R+H G CRIC + S HL H+ H
Sbjct: 20 YACPVESCDRRFSRSDELTRHI-RIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
Score = 35.8 bits (81), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 359 PYACRI--CARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHT 410
PYAC + C R +++ HI++H G+ CR+C F L H+ HT
Sbjct: 19 PYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHT 73
>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 = 35.4 bits (80), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVH 405
P+ CRIC R ++ HI+ H GE C +CG F E K H
Sbjct: 3 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50
Score = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKH 144
+ C +C + +SRS HL H+ R H G C IC + + ++H
Sbjct: 4 FQCRICMRNFSRSDHLTTHI-RTHTGEKPFACDICGRKFARSDERKRH 50
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 35.4 bits (80), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 45/112 (40%), Gaps = 25/112 (22%)
Query: 122 GHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVDEPQMNEFGESVHICHLCQKQFKQNW 181
G V C IC K+ HL +H ++H GE + C +C +FK+
Sbjct: 4 GSSGVACEICGKIFRDVYHLNRHKLSHS--------------GEKPYSCPVCGLRFKRKD 49
Query: 182 LLQKHKKTCKGPKRPTSPLPEPDEDGIFRCKKCVKVFVNPDIYKKHLKHSHT 233
+ H ++ G + +P + C+ C K F PD H+K H+
Sbjct: 50 RMSYHVRSHDG------SVGKP-----YICQSCGKGFSRPDHLNGHIKQVHS 90
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 37/100 (37%), Gaps = 14/100 (14%)
Query: 383 GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMW 442
G V C +CG IF L H H+ E P +C +C + + M
Sbjct: 4 GSSGVACEICGKIFRDVYHLNRHKLSHSG-----------EKPYSCPVCGLRFKRKDRMS 52
Query: 443 QHLIRSHKAVAG--LACGVCLKISETYEALALHLDQAHPG 480
H +RSH G C C K + L H+ Q H G
Sbjct: 53 YH-VRSHDGSVGKPYICQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 27/119 (22%), Positives = 44/119 (36%), Gaps = 28/119 (23%)
Query: 4 GHKEEAALSCGNCLKVFRDNLSLLKHVEEEHPTMQRRYSCQVHIIXXXXXXXXXXXXXXK 63
G + ++C C K+FRD L +H + ++ YSC
Sbjct: 1 GSSGSSGVACEICGKIFRDVYHLNRHKLSH--SGEKPYSC-------------------- 38
Query: 64 HVEEEHPTMQRRYSCQVDTMEAIKEHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKG 122
P R+ + ++ H + Y+C C K +SR HL H+ +VH G
Sbjct: 39 ------PVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 13/91 (14%)
Query: 98 VCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVDE 157
C++C K + HL +H H G +C +C + + H+ +HD V +
Sbjct: 9 ACEICGKIFRDVYHLNRH-KLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDG---SVGK 64
Query: 158 PQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
P +IC C K F + L H K
Sbjct: 65 P---------YICQSCGKGFSRPDHLNGHIK 86
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 12/86 (13%)
Query: 360 YACRICARLLGNGVKVSEHIKLHGE-HLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQ 418
+ C+IC + +S H+ +H + C+ CG FH + ++K H HT
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTG------- 54
Query: 419 KPRPELPVTCDLCSKEWPSRKFMWQH 444
E P C +C K + + H
Sbjct: 55 ----EKPHKCQVCGKAFSQSSNLITH 76
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHT 410
PY C+ C + + +H +H GE C+VCG F L H +HT
Sbjct: 29 PYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSRKHT 81
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 15/92 (16%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVD 156
+ C +C K + RS+ L H+ +H C+ C K + ++KH H
Sbjct: 2 FDCKICGKSFKRSSTLSTHL-LIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHT------- 53
Query: 157 EPQMNEFGESVHICHLCQKQFKQNWLLQKHKK 188
GE H C +C K F Q+ L H +
Sbjct: 54 -------GEKPHKCQVCGKAFSQSSNLITHSR 78
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 31/87 (35%), Gaps = 12/87 (13%)
Query: 387 VNCRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMWQHLI 446
+C++CG F L HL H+D +P P C C K + + M +H
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDT------RPYP-----CQYCGKRFHQKSDMKKHTF 50
Query: 447 RSHKAVAGLACGVCLKISETYEALALH 473
H C VC K L H
Sbjct: 51 -IHTGEKPHKCQVCGKAFSQSSNLITH 76
>pdb|2EW5|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In
Complex With Inhibitor
pdb|2EW6|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In
Complex With Inhibitor
pdb|2EW7|A Chain A, Crystal Structure Of Helicobacter Pylori Peptide
Deformylase
Length = 181
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 34/60 (56%), Gaps = 5/60 (8%)
Query: 203 PDEDGIFRCKKCVKVFVNPDIYKKHLKHSHTKAYCEVCITAPGYETKVELLHHMKTEHKD 262
P EDG+ + C+++ +NP K ++ + Y E C++ PG+ +VE +K E+++
Sbjct: 63 PQEDGVQHKEDCLEI-INP----KFIETGGSMMYKEGCLSVPGFYEEVERFEKVKIEYQN 117
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 330 MCSACFVVEDNLSALEXXXXXXXXXXXXXPYACRICARLLGNGVKVSEHIKLHG-EHLVN 388
+C CF +D L PY C+ C + +++H+++H E
Sbjct: 13 VCGKCFSRKDKL------KTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFK 66
Query: 389 CRVCGSIFHSEPELKVHLEEHT 410
C++C + +L VHL HT
Sbjct: 67 CQICPYASRNSSQLTVHLRSHT 88
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 38/101 (37%), Gaps = 13/101 (12%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKE 417
P+ C +C + K+ H++ H G C+ C L HL H+D
Sbjct: 8 PHKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSD------ 61
Query: 418 QKPRPELPVTCDLCSKEWPSRKFMWQHLIRSHKAVAGLACG 458
E P C +C + + HL RSH +G + G
Sbjct: 62 -----ERPFKCQICPYASRNSSQLTVHL-RSHTGDSGPSSG 96
Score = 32.3 bits (72), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 35/92 (38%), Gaps = 13/92 (14%)
Query: 389 CRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMWQHLIRS 448
C VCG F + +LK H+ HT V P C C + +HL R
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVK-----------PYKCKTCDYAAADSSSLNKHL-RI 58
Query: 449 HKAVAGLACGVCLKISETYEALALHLDQAHPG 480
H C +C S L +HL ++H G
Sbjct: 59 HSDERPFKCQICPYASRNSSQLTVHL-RSHTG 89
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 39/100 (39%), Gaps = 15/100 (15%)
Query: 99 CDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVDEP 158
C++C K +SR L H+ R H G C+ C ++ L KHL H +
Sbjct: 11 CEVCGKCFSRKDKLKTHM-RCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSD-------- 61
Query: 159 QMNEFGESVHICHLCQKQFKQNWLLQKHKKTCKGPKRPTS 198
E C +C + + L H ++ G P+S
Sbjct: 62 ------ERPFKCQICPYASRNSSQLTVHLRSHTGDSGPSS 95
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 27/65 (41%), Gaps = 1/65 (1%)
Query: 88 EHRKTEHAMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIA 147
E ++ E Y CD C K +S S+ L KH R H G C C K R HL H
Sbjct: 10 EWQQRERRRYKCDECGKSFSHSSDLSKH-RRTHTGEKPYKCDECGKAFIQRSHLIGHHRV 68
Query: 148 HDNPN 152
H
Sbjct: 69 HTGSG 73
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVP 413
P+ C C + + +S H + H G +C CG F + E+ HL+ H + P
Sbjct: 4 PFFCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVHQNKP 59
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDN 150
+ C+ C K Y ++ L +H R H G+ +C C K + + +HL H N
Sbjct: 5 FFCNFCGKTYRDASGLSRH-RRAHLGYRPRSCPECGKCFRDQSEVNRHLKVHQN 57
>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 = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 24/68 (35%), Gaps = 11/68 (16%)
Query: 383 GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMW 442
G C CG F S L +HL HT E P C+ C + +
Sbjct: 1 GSSSRECSYCGKFFRSNYYLNIHLRTHTG-----------EKPYKCEFCEYAAAQKTSLR 49
Query: 443 QHLIRSHK 450
HL R HK
Sbjct: 50 YHLERHHK 57
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 32.3 bits (72), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 28/77 (36%), Gaps = 10/77 (12%)
Query: 117 NRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTEVDEPQMNEFGESVHICHLCQKQ 176
R H G C C K + L+ H + +PN F + +C C K
Sbjct: 7 GRTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPN----------FVPAAFVCSKCGKT 56
Query: 177 FKQNWLLQKHKKTCKGP 193
F + + +H C GP
Sbjct: 57 FTRRNTMARHADNCAGP 73
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 25/64 (39%), Gaps = 9/64 (14%)
Query: 164 GESVHICHLCQKQFKQNWLLQKHKKTCKGPKRPTSPLPEPDEDGIFRCKKCVKVFVNPDI 223
GE + C C K F+Q LL H K P +P F C KC K F +
Sbjct: 12 GEKPYACSHCDKTFRQKQLLDMHFKRYHDPNF----VPA-----AFVCSKCGKTFTRRNT 62
Query: 224 YKKH 227
+H
Sbjct: 63 MARH 66
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 46/120 (38%), Gaps = 17/120 (14%)
Query: 173 CQKQFKQNWLLQKHKKTCKGPKRPTSPLPEPDEDGIFRCKKCVKVFVNPDIYKKH-LKHS 231
C K F+ N ++KH T GP+ + C +C K FV K+H L H+
Sbjct: 13 CTKMFRDNSAMRKHLHT-HGPR-------------VHVCAECGKAFVESSKLKRHQLVHT 58
Query: 232 HTKAY-CEVCITAPGYETKVELLHHMKTEHKDNEEYKCLIPGCKKYFRTKLDCQKHCREH 290
K + C + L H++ H + Y C GC K F + + H H
Sbjct: 59 GEKPFQCTFEGCGKRFSLDFNLRTHVRI-HTGDRPYVCPFDGCNKKFAQSTNLKSHILTH 117
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 3/93 (3%)
Query: 212 KKCVKVFVNPDIYKKHLKHSHTKAYCEVCITAPGYETKVELLHHMKTEHKDNEEYKCLIP 271
K C K+F + +KHL H+H VC + L + H + ++C
Sbjct: 11 KGCTKMFRDNSAMRKHL-HTHG-PRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFE 68
Query: 272 GCKKYFRTKLDCQKHCREHKTVTSR-CPTNYCN 303
GC K F + + H R H CP + CN
Sbjct: 69 GCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCN 101
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 11/66 (16%)
Query: 389 CRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMWQHLIRS 448
C VC F + LK H HT+ E P C LC++ + R + +H +
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTN-----------EKPYPCGLCNRAFTRRDLLIRHAQKI 53
Query: 449 HKAVAG 454
H G
Sbjct: 54 HSGNLG 59
>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 = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 38/94 (40%), Gaps = 19/94 (20%)
Query: 97 YVCDL--CPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y CD C + +SRS L +H R H G C+ C + S HL+ H H
Sbjct: 37 YQCDFKDCERRFSRSDQLKRH-QRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHT----- 90
Query: 155 VDEPQMNEFGESVHICHL--CQKQFKQNWLLQKH 186
GE C CQK+F ++ L +H
Sbjct: 91 ---------GEKPFSCRWPSCQKKFARSDELVRH 115
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 28/82 (34%), Gaps = 19/82 (23%)
Query: 359 PYAC--RICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PY C + C R ++ H + H G C+ C F LK H HT
Sbjct: 36 PYQCDFKDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTG---- 91
Query: 416 KEQKPRPELPVTCDLCSKEWPS 437
E P +C WPS
Sbjct: 92 -------EKPFSC-----RWPS 101
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 18/91 (19%)
Query: 360 YACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPETKEQ 418
Y C+ C + + + H+ +H G C VCG F + L H++ HT +
Sbjct: 11 YPCQ-CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIK----- 64
Query: 419 KPRPELPVTCDLCSKEWPSRKFMWQHLIRSH 449
P C++C+K +FMW+ H
Sbjct: 65 ------PYECNICAK-----RFMWRDSFHRH 84
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 40/101 (39%), Gaps = 11/101 (10%)
Query: 220 NPDIYKKHLKHSHTKAYCEVCITAPGYETKVELLHHMKTEHKDNEEYKCLIPGCKKYFRT 279
PD+ K+ + YC+ Y L H++T H + YKC GC F
Sbjct: 7 GPDLEKRRIH------YCDYPGCTKVYTKSSHLKAHLRT-HTGEKPYKCTWEGCDWRFAR 59
Query: 280 KLDCQKHCREHKTVTSRCPTNYCNFCADLFTNRKKLWLHLK 320
+ +H R+H T P C C F+ L LH+K
Sbjct: 60 SDELTRHYRKH---TGAKPFQ-CGVCNRSFSRSDHLALHMK 96
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 30/86 (34%), Gaps = 12/86 (13%)
Query: 392 CGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWP-SRKFMWQHLIRSHK 450
C ++ LK HL HT E P C +W +R R H
Sbjct: 23 CTKVYTKSSHLKAHLRTHTG-----------EKPYKCTWEGCDWRFARSDELTRHYRKHT 71
Query: 451 AVAGLACGVCLKISETYEALALHLDQ 476
CGVC + + LALH+ +
Sbjct: 72 GAKPFQCGVCNRSFSRSDHLALHMKR 97
>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 = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 33/89 (37%), Gaps = 20/89 (22%)
Query: 389 CRVCGSIFHSEPELKVHLEEHTDVPETKEQKPRPELPVTCDLCSKEWPSRKFMWQHLIRS 448
C+ CG F L +H HTD E P TCD+C K F Q +R
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTD-----------ERPYTCDICHKA-----FRRQDHLRD 63
Query: 449 HKAVAG----LACGVCLKISETYEALALH 473
H+ + C C K LA+H
Sbjct: 64 HRYIHSKEKPFKCQECGKGFCQSRTLAVH 92
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Domain
In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Protein
In Complex With Methylated Cpg Site Dna
Length = 133
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 35/95 (36%), Gaps = 15/95 (15%)
Query: 95 AMYVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDNPNTE 154
Y+C +C + Y T L +H N +H CR C KV + KH I H
Sbjct: 21 VYYICIVCKRSYVCLTSLRRHFN-IHSWEKKYPCRYCEKVFPLAEYRTKHEIHHT----- 74
Query: 155 VDEPQMNEFGESVHICHLCQKQFKQNWLLQKHKKT 189
GE + C C K F + H K+
Sbjct: 75 ---------GERRYQCLACGKSFINYQFMSSHIKS 100
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKG 122
Y CD+C K +S+S+HL H RVH G
Sbjct: 13 YKCDVCGKEFSQSSHLQTH-QRVHTG 37
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHT 410
PY C C ++ H +H GE C +CG+ F+ LK H H+
Sbjct: 17 PYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHS 69
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 1/58 (1%)
Query: 359 PYACRICARLLGNGVKVSEHIKLH-GEHLVNCRVCGSIFHSEPELKVHLEEHTDVPET 415
PY C C + + +H ++H GE C CG F L H HT P +
Sbjct: 14 PYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTSGPSS 71
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 97 YVCDLCPKYYSRSTHLWKHVNRVHKGHPDVTCRICSKVSSSRGHLEKHLIAHDN 150
Y C C K +SRS+ L +H RVH G C C K S L H H +
Sbjct: 15 YGCVECGKAFSRSSILVQH-QRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTS 67
>pdb|2GHF|A Chain A, Solution Structure Of The Complete Zinc-Finger Region Of
Human Zinc-Fingers And Homeoboxes 1 (Zhx1)
Length = 102
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 416 KEQKPRPELPVTCDLCSKEWPSRKFMWQHLIRSHKAVAGLACGVCLK---ISETYEALAL 472
+Q + E C C+ + P H+ H V + VC++ +++ Y+AL+
Sbjct: 9 NQQNKKVEGGYECKYCTFQTPDLNMFTFHVDSEHPNVVLNSSYVCVECNFLTKRYDALSE 68
Query: 473 HLDQAHPG 480
H + HPG
Sbjct: 69 HNLKYHPG 76
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.135 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,013,323
Number of Sequences: 62578
Number of extensions: 696828
Number of successful extensions: 2090
Number of sequences better than 100.0: 64
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 1702
Number of HSP's gapped (non-prelim): 344
length of query: 537
length of database: 14,973,337
effective HSP length: 103
effective length of query: 434
effective length of database: 8,527,803
effective search space: 3701066502
effective search space used: 3701066502
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)