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= 026846
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 32/44 (72%)
Query: 6 FSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 49
FSLDFNLR+H++ H+ + ++CP+ C K++A LK+HI +H
Sbjct: 74 FSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTH 117
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 40/105 (38%), Gaps = 33/105 (31%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATP 64
AF L+ H H+ E C + CGKR++ ++ L+ H+ H
Sbjct: 43 AFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIH--------------- 87
Query: 65 PERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHL 109
+ +RPY CP++GC K + LK H+
Sbjct: 88 ------------------TGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 40/104 (38%), Gaps = 37/104 (35%)
Query: 12 LRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKT 71
+R H+ TH H+C +CGK + KLK H H
Sbjct: 23 MRKHLHTHGPR-VHVCA--ECGKAFVESSKLKRHQLVH---------------------- 57
Query: 72 PKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
+ E+P+ C +EGC K + ++ L+ H+ R H G
Sbjct: 58 -----------TGEKPFQCTFEGCGKRFSLDFNLRTHV-RIHTG 89
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 42/105 (40%), Gaps = 33/105 (31%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATP 64
+F + L +H++ H+ E CP+P CGK +A LK H +H
Sbjct: 71 SFKAKYKLVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHKRTH--------------- 115
Query: 65 PERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHL 109
+ E+P+ C +EGC++ + + K H+
Sbjct: 116 ------------------TGEKPFKCEFEGCDRRFANSSDRKKHM 142
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 37/98 (37%)
Query: 21 QENYHICPYPDC---GKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAG 77
++N H+C + +C GK + +YKL NHI H
Sbjct: 54 EQNNHVCYWEECPREGKSFKAKYKLVNHIRVH---------------------------- 85
Query: 78 VYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
+ E+P+ CP+ GC K + LK+H KR H G
Sbjct: 86 -----TGEKPFPCPFPGCGKIFARSENLKIH-KRTHTG 117
Score = 30.4 bits (67), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 6 FSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 49
F+ NL+ H +TH+ E C + C +R+A+ K H+ H
Sbjct: 102 FARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHMHVH 145
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/112 (30%), Positives = 47/112 (41%), Gaps = 10/112 (8%)
Query: 6 FSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPP 65
F + L HM+ H+ E H C + C K Y+ LK H+ SH E P Y
Sbjct: 49 FKAQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSH-----TGEKP-YMCEH 102
Query: 66 ERITKTPKPPAGVYG----SASSERPYACPYEGCEKAYIHEYKLKLHLKREH 113
E +K + + S+E+PY C GC K Y L+ H+K H
Sbjct: 103 EGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 1/106 (0%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATP 64
F+ +L H TH+ E C C R+ + +K H H V V +
Sbjct: 53 GFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENC 112
Query: 65 PERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHLK 110
+ K + + S + + PY CP+EGC+K + +LK H K
Sbjct: 113 GKAFKKHNQLKVHQF-SHTQQLPYECPHEGCDKRFSLPSRLKRHEK 157
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 30/84 (35%), Gaps = 33/84 (39%)
Query: 25 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 84
+IC + DCG Y +KL+ H+ H +
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKH---------------------------------TG 39
Query: 85 ERPYACPYEGCEKAYIHEYKLKLH 108
E+P+ C EGCEK + + L H
Sbjct: 40 EKPFPCKEEGCEKGFTSLHHLTRH 63
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 34/89 (38%), Gaps = 34/89 (38%)
Query: 25 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 84
HIC +P CGK Y LK H +H +
Sbjct: 18 HICSHPGCGKTYFKSSHLKAHTRTH---------------------------------TG 44
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREH 113
E+P++C ++GCE+ + +L H +R H
Sbjct: 45 EKPFSCSWKGCERRFARSDELSRH-RRTH 72
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 11 NLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 49
+L++H +TH+ E C + C +R+A +L H +H
Sbjct: 34 HLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 45/111 (40%), Gaps = 38/111 (34%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATP 64
+FS NLR+H +TH+ E + C P+CGK ++ L+ H +H
Sbjct: 86 SFSQRANLRAHQRTHTGEKPYAC--PECGKSFSQLAHLRAHQRTH--------------- 128
Query: 65 PERITKTPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
+ E+PY CP C K++ E L H +R H G
Sbjct: 129 ------------------TGEKPYKCPE--CGKSFSREDNLHTH-QRTHTG 158
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 53/114 (46%), Gaps = 16/114 (14%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATP 64
+FS +L H +TH+ E + C P+CGK ++ + L H +H E P Y P
Sbjct: 30 SFSRSDHLAEHQRTHTGEKPYKC--PECGKSFSDKKDLTRHQRTH-----TGEKP-YKCP 81
Query: 65 PERITKTPKPPAGVYG---SASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
K+ A + + + E+PYACP C K++ L+ H +R H G
Sbjct: 82 --ECGKSFSQRANLRAHQRTHTGEKPYACPE--CGKSFSQLAHLRAH-QRTHTG 130
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 34.3 bits (77), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 31/84 (36%), Gaps = 33/84 (39%)
Query: 25 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 84
+IC + DCG Y +KL+ H++ H +
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKH---------------------------------TG 30
Query: 85 ERPYACPYEGCEKAYIHEYKLKLH 108
E+P+ C EGCEK + + L H
Sbjct: 31 EKPFPCKEEGCEKGFTSLHHLTRH 54
>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 = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 49
+FS NL+ H +TH+ E + C P+CGK ++ L+ H +H
Sbjct: 13 SFSQSSNLQKHQRTHTGEKPYKC--PECGKSFSQSSDLQKHQRTH 55
Score = 30.4 bits (67), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 5 AFSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEK 52
+FS +L+ H +TH+ E + C P+CGK ++ L H +H K
Sbjct: 41 SFSQSSDLQKHQRTHTGEKPYKC--PECGKSFSRSDHLSRHQRTHQNK 86
>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 = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTG 31
>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 = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 46/98 (46%), Gaps = 5/98 (5%)
Query: 11 NLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITK 70
+L+ H + H+ E + C + DC +R++ +LK H H V+ + T + ++
Sbjct: 23 HLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRH----TGVKPFQCKTCQRKFSR 78
Query: 71 TPKPPAGVYGSASSERPYACPYEGCEKAYIHEYKLKLH 108
+ + + E+P++C + C+K + +L H
Sbjct: 79 SDHLKTHT-RTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 82 ASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
AS +RP+ C Y GC K Y L++H R+H G
Sbjct: 1 ASEKRPFMCAYPGCNKRYFKLSHLQMH-SRKHTG 33
Score = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 36/90 (40%), Gaps = 34/90 (37%)
Query: 26 ICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSE 85
+C YP C KRY +KL +H+ H K+ E
Sbjct: 8 MCAYPGCNKRY---FKL-SHLQMHSRKHTG-----------------------------E 34
Query: 86 RPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
+PY C ++ CE+ + +LK H +R H G
Sbjct: 35 KPYQCDFKDCERRFSRSDQLKRH-QRRHTG 63
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%)
Query: 6 FSLDFNLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 49
FS +L++H +TH+ E C +P C K++A +L H H
Sbjct: 76 FSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRHHNMH 119
>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 = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTG 31
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 9/94 (9%)
Query: 20 SQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGV- 78
S+ H C Y CGK Y LK H+ +H E P + K +
Sbjct: 2 SRTATHTCDYAGCGKTYTKSSHLKAHLRTH-----TGEKPYHCDWDGCGWKFARSDELTR 56
Query: 79 -YGSASSERPYACPYEGCEKAYIHEYKLKLHLKR 111
Y + RP+ C + C++A+ L LH+KR
Sbjct: 57 HYRKHTGHRPFQC--QKCDRAFSRSDHLALHMKR 88
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 9/89 (10%)
Query: 25 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGV--YGSA 82
H C Y CGK Y LK H+ +H E P + K + Y
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTH-----TGEKPYHCDWDGCGWKFARSDELTRHYRKH 60
Query: 83 SSERPYACPYEGCEKAYIHEYKLKLHLKR 111
+ RP+ C + C++A+ L LH+KR
Sbjct: 61 TGHRPFQC--QKCDRAFSRSDHLALHMKR 87
>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 = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + +L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHI-RIHTG 31
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 32/91 (35%), Gaps = 34/91 (37%)
Query: 25 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 84
H C YP C K Y LK H+ +H +
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTH---------------------------------TG 42
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
E+PY C +EGC+ + +L H R+H G
Sbjct: 43 EKPYKCTWEGCDWRFARSDELTRHY-RKHTG 72
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 11 NLRSHMKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 49
+L++H++TH+ E + C + C R+A +L H H
Sbjct: 32 HLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKH 70
>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 = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHI-RIHTG 31
>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 = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHI-RIHTG 31
>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 = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + +L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTG 31
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHI-RIHTG 31
>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 = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + +L H+ R H G
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHI-RIHTG 30
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 30.8 bits (68), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
ERPYACP E C++ + +L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHI-RIHTG 31
>pdb|2EJ4|A Chain A, Functional And Structural Basis Of Nuclear Localization
Signal In Zic3 Zinc Finger Domain: A Role Of Conserved
Tryptophan Residue In The Zinc Finger Domain
Length = 95
Score = 30.4 bits (67), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 21 QENYHICPYPDC---GKRYAHEYKLKNHIASH 49
++N H+C + +C GK + +YKL NHI H
Sbjct: 54 EQNNHVCYWEECPREGKSFKAKYKLVNHIRVH 85
>pdb|1ZFD|A Chain A, Swi5 Zinc Finger Domain 2, Nmr, 45 Structures
Length = 32
Score = 30.4 bits (67), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLK 110
+RPY+C + GC+KA++ + L H K
Sbjct: 1 DRPYSCDHPGCDKAFVRNHDLIRHKK 26
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 83 SSERPYACPYEGCEKAYIHEYKLKLHLKREH 113
+ E+PYAC + C+K + + L +H KR H
Sbjct: 11 TGEKPYACSH--CDKTFRQKQLLDMHFKRYH 39
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 86 RPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
RPYACP E C++ + +L H+ R H G
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHI-RIHTG 46
>pdb|1ZNM|A Chain A, A Zinc Finger With An Artificial Beta-Turn, Original
Sequence Taken From The Third Zinc Finger Domain Of The
Human Transcriptional Repressor Protein Yy1 (Ying And
Yang 1, A Delta Transcription Factor), Nmr, 34
Structures
Length = 28
Score = 29.3 bits (64), Expect = 2.1, Method: Composition-based stats.
Identities = 10/15 (66%), Positives = 14/15 (93%)
Query: 6 FSLDFNLRSHMKTHS 20
FSLDFNL++H+K H+
Sbjct: 13 FSLDFNLKTHVKIHT 27
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 27 CPYPDCGKRYAHEYKLKNHIASH 49
C + CGKR++ ++ LK H+ H
Sbjct: 4 CTFXCCGKRFSLDFNLKTHVKIH 26
>pdb|1X3C|A Chain A, Solution Structure Of The C2h2 Type Zinc-Binding Domain Of
Human Zinc Finger Protein 292
Length = 73
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 86 RPYACPYEGCEKAYIHEYKLKLHLKREH 113
RPY C ++GC A+ + L LH + H
Sbjct: 26 RPYRCVHQGCFAAFTIQQNLILHYQAVH 53
>pdb|1UN6|B Chain B, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|C Chain C, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|D Chain D, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|2HGH|A Chain A, Transcription Factor Iiia Zinc Fingers 4-6 Bound To 5s
Rrna 55mer (Nmr Structure)
Length = 87
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 33/86 (38%)
Query: 25 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 84
++C + +CGK + +LK H SH +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSH---------------------------------TQ 28
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLK 110
+ PY CP+EGC+K + +LK H K
Sbjct: 29 QLPYECPHEGCDKRFSLPSRLKRHEK 54
>pdb|2J7J|A Chain A, Invariance Of The Zinc Finger Module: A Comparison Of The
Free Structure With Those In Nucleic-Acid Complexes
Length = 85
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 81 SASSERPYACPYEGCEKAYIHEYKLKLHLK 110
S + + PY CP+EGC+K + +LK H K
Sbjct: 25 SHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
>pdb|2EOR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
255- 287) Of Human Zinc Finger Protein 224
Length = 46
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 85 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 115
E+PY C E C KA+IH+ +L+ H +R H G
Sbjct: 10 EKPYNC--EECGKAFIHDSQLQEH-QRIHTG 37
>pdb|2ELN|A Chain A, Solution Structure Of The 11th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 38
Score = 26.9 bits (58), Expect = 9.5, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 81 SASSERPYACPYEGCEKAYIHEYKLKLHLK 110
S SS CP +GC+ + +YKL+ HLK
Sbjct: 3 SGSSGILLKCPTDGCDYSTPDKYKLQAHLK 32
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
0.313 0.129 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,400,448
Number of Sequences: 62578
Number of extensions: 232333
Number of successful extensions: 428
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 304
Number of HSP's gapped (non-prelim): 112
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)