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= psy1778
(66 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTN 63
FPCP CGK F RSE+L+ H H KP F C ++ C + S H+ HVH+++
Sbjct: 91 FPCPFPGCGKIFARSENLKIHKRTHTGEKP-FKCEFEGCDRRFANSSDRKKHM-HVHTSD 148
Query: 64 K 64
K
Sbjct: 149 K 149
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 12 GKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 64
GKSF L H+ H KP F CP+ C + +L H K H+ K
Sbjct: 69 GKSFKAKYKLVNHIRVHTGEKP-FPCPFPGCGKIFARSENLKIH-KRTHTGEK 119
>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 = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ + CP CGKSF RS+HL EH H KP + CP +C S+ K L H +
Sbjct: 20 KPYACP--ECGKSFSRSDHLAEHQRTHTGEKP-YKCP--ECGKSFSDKKDLTRHQR 70
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 61
+ + CP CGKSF R ++L H H KP + CP +C S+ + +L H + H+
Sbjct: 132 KPYKCP--ECGKSFSREDNLHTHQRTHTGEKP-YKCP--ECGKSFSRRDALNVHQR-THT 185
Query: 62 TNKIT 66
K +
Sbjct: 186 GKKTS 190
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ + CP CGKSF + HL+ H H KP + CP +C S+ + +L+ H +
Sbjct: 104 KPYACP--ECGKSFSQLAHLRAHQRTHTGEKP-YKCP--ECGKSFSREDNLHTHQR 154
Score = 32.3 bits (72), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ + CP CGKSF + L H H KP + CP +C S+ +++L AH +
Sbjct: 48 KPYKCP--ECGKSFSDKKDLTRHQRTHTGEKP-YKCP--ECGKSFSQRANLRAHQR 98
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ + CP CGKSF + +L+ H H KP + CP +C S+ + L AH +
Sbjct: 76 KPYKCP--ECGKSFSQRANLRAHQRTHTGEKP-YACP--ECGKSFSQLAHLRAHQR 126
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 1 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+R C CGK++ +S HL+ H H KP F+C ++ C + L H +
Sbjct: 15 IRSHICSHPGCGKTYFKSSHLKAHTRTHTGEKP-FSCSWKGCERRFARSDELSRHRR 70
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 61
FPC C K F HL H L H K FTC C + + K+++ H H+
Sbjct: 34 FPCKEEGCEKGFTSLHHLTRHSLTHTGEK-NFTCDSDGCDLRFTTKANMKKHFNRFHN 90
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH-LKHVH 60
+ + C CG ++ ++ LQ H+ +H KP F C + C + + L H L H
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAHLSKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTG 60
Query: 61 STN 63
N
Sbjct: 61 EKN 63
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 6 CPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
C CGK++ +S HL+ H+ H KP + C + C + L H +
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYR 59
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ C CG F RS+ L H +H ++P F C Q C ++ L H+K
Sbjct: 37 YHCDWDGCGWKFARSDELTRHYRKHTGHRP-FQC--QKCDRAFSRSDHLALHMK 87
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 6 CPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
C CGK++ +S HL+ H+ H KP + C + C + L H +
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHTGEKP-YHCDWDGCGWKFARSDELTRHYR 58
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ C CG F RS+ L H +H ++P F C Q C ++ L H+K
Sbjct: 36 YHCDWDGCGWKFARSDELTRHYRKHTGHRP-FQC--QKCDRAFSRSDHLALHMK 86
>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 = 0.004, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 61
FPC C K F HL H L H K FTC C + + K+++ H H+
Sbjct: 43 FPCKEEGCEKGFTSLHHLTRHSLTHTGEK-NFTCDSDGCDLRFTTKANMKKHFNRFHN 99
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 3 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
++ C CGK+F + L+ H H + P + CP++ C + S L H K
Sbjct: 104 VYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK 157
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH-LKHVH 60
+ + C CG ++ ++ LQ H+ +H KP F C + C + + L H L H
Sbjct: 11 KRYICSFADCGAAYNKNWKLQAHLCKHTGEKP-FPCKEEGCEKGFTSLHHLTRHSLTHTG 69
Query: 61 STN 63
N
Sbjct: 70 EKN 72
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
Length = 73
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 1 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
MR + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 17 MRPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 70
>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 = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 64
CGK+F+ S L+ H L H KP F C ++ C + +L H++ +H+ ++
Sbjct: 40 CGKAFVESSKLKRHQLVHTGEKP-FQCTFEGCGKRFSLDFNLRTHVR-IHTGDR 91
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHL 56
F C CGK F +L+ H+ H ++P + CP+ C + ++L +H+
Sbjct: 63 FQCTFEGCGKRFSLDFNLRTHVRIHTGDRP-YVCPFDGCNKKFAQSTNLKSHI 114
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 32
R + CP C K F +S +L+ H+L H + K
Sbjct: 91 RPYVCPFDGCNKKFAQSTNLKSHILTHAKAK 121
>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 = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ CP CGKSF +S +LQ+H H KP + CP +C S+ S L H +
Sbjct: 5 YKCP--ECGKSFSQSSNLQKHQRTHTGEKP-YKCP--ECGKSFSQSSDLQKHQR 53
Score = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ CP CGKSF +S LQ+H H KP + CP +C S+ L H +
Sbjct: 33 YKCP--ECGKSFSQSSDLQKHQRTHTGEKP-YKCP--ECGKSFSRSDHLSRHQR 81
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENK 32
+ CP CGKSF RS+HL H H K
Sbjct: 61 YKCP--ECGKSFSRSDHLSRHQRTHQNKK 87
>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 = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F + +L H+ H KP F C + C+ ++ ++SL AH++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQC--RICMRNFSQQASLNAHIR 55
>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 = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F RS+ L H+ H KP F C C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQCRI--CMRNFSRSDHLTTHIR 55
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 35 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F RS+ L H+ H KP F C C+ ++ L H++
Sbjct: 2 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQCRI--CMRNFSRSDHLTTHIR 54
Score = 25.8 bits (55), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 34 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 82
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 6 CPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 64
C C KS+ R E+L+ H+ H KP + C ++ C ++ S H HS K
Sbjct: 70 CTFEGCRKSYSRLENLKTHLRSHTGEKP-YMCEHEGCSKAFSNASDRAKHQNRTHSNEK 127
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 61
+ C C K+F + +H + + N+ + C C Y SSL H+K VH
Sbjct: 98 YMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVHG 155
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F RS+ L H+ H KP F C + C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQC--RICMRNFSRSDHLTTHIR 55
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 35 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 83
>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 = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R F C C K + + HLQ H +H KP + C ++DC + L H +
Sbjct: 5 RPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKP-YQCDFKDCERRFSRSDQLKRHQR 59
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 5 PCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 55
P TC + F RS+HL+ H H KP F+C + C + L H
Sbjct: 66 PFQCKTCQRKFSRSDHLKTHTRTHTGEKP-FSCRWPSCQKKFARSDELVRH 115
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ C C + F RS+ L+ H +H KP F C + C + L H +
Sbjct: 37 YQCDFKDCERRFSRSDQLKRHQRRHTGVKP-FQC--KTCQRKFSRSDHLKTHTR 87
>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 = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 3 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
M+ C CGK+F + L+ H H + P + CP++ C + S L H K
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK 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 = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 3 MFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
M+ C CGK+F + L+ H H + P + CP++ C + S L H K
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLP-YECPHEGCDKRFSLPSRLKRHEK 54
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 11 CGKSFLRSEHLQEHMLQ-HNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHS 61
C F +S ++ H+LQ H EN KF CP+ D +++ KS L HL+ HS
Sbjct: 21 CHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIA--RKSDLGVHLRKQHS 70
>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 = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F RS L H+ H KP F C C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSAELTRHIRIHTGQKP-FQCRI--CMRNFSRSDHLTTHIR 55
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 35 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 83
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 1 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 32
+ F CP CGKSF +HL+EHM H++ +
Sbjct: 36 QKSFSCPEPACGKSFNFKKHLKEHMKLHSDTR 67
Score = 32.0 bits (71), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 5 PCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 64
PC CG+ F ++L H + ++ F+CP C S+ K L H+K +HS +
Sbjct: 9 PCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK-LHSDTR 67
>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 = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F RS L H+ H KP F C C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSRSADLTRHIRIHTGQKP-FQCRI--CMRNFSRSDHLTTHIR 55
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 35 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 83
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 10 TCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTN 63
C ++F R EHL+ H H KP P C ++ + L H + +HS N
Sbjct: 7 VCTRAFARQEHLKRHYRSHTNEKPY---PCGLCNRAFTRRDLLIRHAQKIHSGN 57
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 32.7 bits (73), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R+ C C K + +S HL+ H+ H KP + C ++ C + L H +
Sbjct: 14 RIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYR 68
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
+ C C F RS+ L H +H KP F C C S+ L H+K
Sbjct: 46 YKCTWEGCDWRFARSDELTRHYRKHTGAKP-FQCGV--CNRSFSRSDHLALHMK 96
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 55
F C + CGKSF RS L H+L H++ +P P Q C + KS + H
Sbjct: 2 FDCKI--CGKSFKRSSTLSTHLLIHSDTRPY---PCQYCGKRFHQKSDMKKH 48
>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 = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 55
R + C + C K+F R +HL++H H++ KP F C Q+C + +L H
Sbjct: 44 RPYTCDI--CHKAFRRQDHLRDHRYIHSKEKP-FKC--QECGKGFCQSRTLAVH 92
>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 = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F S +L H+ H KP F C C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSDSSNLTRHIRIHTGQKP-FQCRI--CMRNFSRSDHLTTHIR 55
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 35 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 83
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F +S L H+ H KP F C C+ ++ L H++
Sbjct: 3 RPYACPVESCDRRFSQSGSLTRHIRIHTGQKP-FQCRI--CMRNFSRSDHLTTHIR 55
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
F C + C ++F RS+HL H+ H KP F C C + H K
Sbjct: 35 FQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FACDI--CGRKFARSDERKRHTK 83
>pdb|1SP2|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f2, Minimized Average Structure
pdb|1VA2|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna
Binding Domain (Zinc Finger 2)
Length = 31
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 15/31 (48%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 32
R F C CGK F RS+ LQ H H K
Sbjct: 1 RPFMCTWSYCGKRFTRSDELQRHKRTHTGEK 31
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 55
R + C CGKSF S L +H H KP + C +C +++ +S L H
Sbjct: 17 RRYKCD--ECGKSFSHSSDLSKHRRTHTGEKP-YKC--DECGKAFIQRSHLIGH 65
>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 = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
R + CP+ +C + F + +L H+ H KP F C C+ ++ + L H++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQCRI--CMRNFSQHTGLNQHIR 55
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 7/61 (11%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPY--QDCLMSYVAKSSLYAHLKHVHS 61
+ CP+ CG F R + + H+ H+ + K PY Q C + L H+K VHS
Sbjct: 36 YSCPV--CGLRFKRKDRMSYHVRSHDGSVGK---PYICQSCGKGFSRPDHLNGHIKQVHS 90
Query: 62 T 62
Sbjct: 91 G 91
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLK 57
CGK F HL H L H+ KP ++CP C + + K + H++
Sbjct: 13 CGKIFRDVYHLNRHKLSHSGEKP-YSCPV--CGLRFKRKDRMSYHVR 56
>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 = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTNK 64
CGK F R + L+ HM H KP + C + C + SSL HL+ +HS +
Sbjct: 14 CGKCFSRKDKLKTHMRCHTGVKP-YKC--KTCDYAAADSSSLNKHLR-IHSDER 63
>pdb|2LVT|A Chain A, Solution Structure Of Miz-1 Zinc Finger 9
Length = 29
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 5 PCPLVTCGKSFLRSEHLQEHMLQHNENK 32
PC V CGK+F ++ L H+ QH K
Sbjct: 2 PCQCVMCGKAFTQASSLIAHVRQHTGEK 29
>pdb|1VA3|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna
Binding Domain (Zinc Finger 3)
pdb|1SP1|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f3, Minimized Average Structure
Length = 29
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 2 RMFPCPLVTCGKSFLRSEHLQEHMLQHNENK 32
+ F CP C K F+RS+HL +H+ H K
Sbjct: 1 KKFACP--ECPKRFMRSDHLSKHIKTHQNKK 29
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 5 PCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAHLKHVHSTN 63
P V CGK+F RS L +H H KP + C +C ++ S L H + +H++
Sbjct: 14 PYGCVECGKAFSRSSILVQHQRVHTGEKP-YKC--LECGKAFSQNSGLINHQR-IHTSG 68
>pdb|1RIK|A Chain A, E6-Binding Zinc Finger (E6apc1)
Length = 29
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENK 32
F CP C K F+RS+HL H+L H K
Sbjct: 3 FACP--ECPKRFMRSDHLTLHILLHENKK 29
>pdb|2EMM|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
544- 576) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGKSF++S HL +H H KP
Sbjct: 18 CGKSFIQSAHLIQHQRIHTGEKP 40
>pdb|2PQ6|A Chain A, Crystal Structure Of Medicago Truncatula Ugt85h2- Insights
Into The Structural Basis Of A Multifunctional (Iso)
Flavonoid Glycosyltransferase
Length = 482
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 13 KSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSS 51
K+FL+ L H+ N P TC DC MS+ +++
Sbjct: 97 KNFLKPYCELLTRLNHSTNVPPVTCLVSDCCMSFTIQAA 135
>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 = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGK F +S HLQ H H KP
Sbjct: 18 CGKEFSQSSHLQTHQRVHTGEKP 40
>pdb|2ENT|A Chain A, Solution Structure Of The Second C2h2-Type Zinc Finger
Domain From Human Krueppel-Like Factor 15
Length = 48
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHNENKP 33
F C CG F RS+ L H H+ KP
Sbjct: 13 FACTWPGCGWRFSRSDELSRHRRSHSGVKP 42
>pdb|2EQ0|A Chain A, Solution Structure Of The 8th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 27.3 bits (59), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGK F R+ HL H L H KP
Sbjct: 18 CGKVFRRNSHLARHQLIHTGEKP 40
>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 = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 6 CPLVTCGKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSYVAKSSLYAH 55
CP TC K FL +L+ H +H KP F CP C Y K +L H
Sbjct: 10 CP--TCHKKFLSKYYLKVHNRKHTGEKP-FECP--KCGKCYFRKENLLEH 54
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQH--NENKPKFTCPYQDCLMSYVAKSSLYAHL 56
F CP CGK + R E+L EH ++ N ++ FTC C ++ + L H+
Sbjct: 36 FECP--KCGKCYFRKENLLEHEARNCMNRSEQVFTCSV--CQETFRRRMELRLHM 86
>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 = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 1 MRMFPCPLVTCGKSFLRSEHLQEHMLQHNENKPKFTC 37
M+ F C + C ++F RS+HL H+ H KP F C
Sbjct: 1 MKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKP-FAC 34
>pdb|2EN2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
598- 626) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 10 TCGKSFLRSEHLQEHMLQHNENKP 33
TCG F++ HL+ H+L H + P
Sbjct: 16 TCGARFVQVAHLRAHVLIHTGSGP 39
>pdb|2YTT|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
204- 236) Of Human Zinc Finger Protein 473
Length = 46
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGKSF S L +H + H KP
Sbjct: 18 CGKSFSGSYRLTQHWITHTREKP 40
>pdb|2YTS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
715- 747) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGKSF++ HL H H KP
Sbjct: 18 CGKSFIQKSHLNRHRRIHTGEKP 40
>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 = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGK+F+ LQEH H KP
Sbjct: 18 CGKAFIHDSQLQEHQRIHTGEKP 40
>pdb|4FO9|A Chain A, Crystal Structure Of The E3 Sumo Ligase Pias2
Length = 360
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 23/51 (45%), Gaps = 12/51 (23%)
Query: 1 MRM-FPCPLVTCGKSFLRSEHLQ----EHMLQHNENKPKFTCPYQDCLMSY 46
MR+ PC VTC HLQ LQ NE KP + CP D +Y
Sbjct: 223 MRLTIPCRAVTC-------THLQCFDAALYLQMNEKKPTWICPVCDKKAAY 266
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 10 TCGKSFLRSEHLQEHMLQ-HNENKP 33
+CGK F R +HL H+ Q H +P
Sbjct: 17 SCGKGFSRPDHLNGHIKQVHTSERP 41
>pdb|2VEC|A Chain A, The Crystal Structure Of The Protein Yhak From Escherichia
Coli
Length = 256
Score = 26.2 bits (56), Expect = 4.9, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 13 KSFLRSEHLQEHMLQHNENKPKFTC 37
+++L+S H + H L H+E K TC
Sbjct: 203 RAYLQSIHGKFHALTHHEEKAALTC 227
>pdb|1RIM|A Chain A, E6-Binding Zinc Finger (E6apc2)
Length = 33
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 4 FPCPLVTCGKSFLRSEHLQEHMLQHN 29
F CP C K F+RS+HL +H+ H
Sbjct: 3 FACP--ECPKRFMRSDHLSKHITLHE 26
>pdb|2EPR|A Chain A, Solution Structure Of The Secound Zinc Finger Domain Of
Zinc Finger Protein 278
Length = 48
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKPKFTCP 38
CGK F HL H L H+ KP + P
Sbjct: 18 CGKIFRDVYHLNRHKLSHSGEKPYSSGP 45
>pdb|1U86|A Chain A, 321-Tw-322 Insertion Mutant Of The Third Zinc Finger Of
Bklf
Length = 35
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 1 MRMFPCPLVTCGKSFLRSEHLQEHMLQH 28
++ F C C +SF RS+HL H +H
Sbjct: 5 IKPFQCTWPDCDRSFSRSDHLALHRKRH 32
>pdb|2EMC|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
641- 673) Of Human Zinc Finger Protein 473
Length = 46
Score = 25.0 bits (53), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 11 CGKSFLRSEHLQEHMLQHNENKP 33
CGK+F S HL +H L H P
Sbjct: 18 CGKTFSHSAHLSKHQLIHAGENP 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
0.324 0.132 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,960,285
Number of Sequences: 62578
Number of extensions: 57871
Number of successful extensions: 387
Number of sequences better than 100.0: 86
Number of HSP's better than 100.0 without gapping: 79
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 241
Number of HSP's gapped (non-prelim): 140
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)