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= 027872
(217 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 = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 37/98 (37%)
Query: 6 QENYHICPYPDC---GKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAG 62
++N H+C + +C GK + +YKL NHI H
Sbjct: 54 EQNNHVCYWEECPREGKSFKAKYKLVNHIRVH---------------------------- 85
Query: 63 VYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
+ E+P+ CP+ GC K + LK+H KR H G
Sbjct: 86 -----TGEKPFPCPFPGCGKIFARSENLKIH-KRTHTG 117
Score = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 36/94 (38%), Gaps = 33/94 (35%)
Query: 1 MKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPP 60
++ H+ E CP+P CGK +A LK H +H
Sbjct: 82 IRVHTGEKPFPCPFPGCGKIFARSENLKIHKRTH-------------------------- 115
Query: 61 AGVYGSASSERPYACPYEGCEKAYIHEYKLKLHL 94
+ E+P+ C +EGC++ + + K H+
Sbjct: 116 -------TGEKPFKCEFEGCDRRFANSSDRKKHM 142
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 35/92 (38%), Gaps = 33/92 (35%)
Query: 3 THSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAG 62
H+ E C + CGKR++ ++ L+ H+ H
Sbjct: 56 VHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIH---------------------------- 87
Query: 63 VYGSASSERPYACPYEGCEKAYIHEYKLKLHL 94
+ +RPY CP++GC K + LK H+
Sbjct: 88 -----TGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 40/90 (44%), Gaps = 9/90 (10%)
Query: 12 CPYPDCGKRYAHEYKLKNHIASHHEK-NAAVEVPRYATPPERITKTPKPPAGVYGSASSE 70
CP+ C K + ++ H+ +H + + E + ++ + G E
Sbjct: 8 CPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQLVHTG-------E 60
Query: 71 RPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
+P+ C +EGC K + ++ L+ H+ R H G
Sbjct: 61 KPFQCTFEGCGKRFSLDFNLRTHV-RIHTG 89
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 22/34 (64%)
Query: 1 MKTHSQENYHICPYPDCGKRYAHEYKLKNHIASH 34
++ H+ + ++CP+ C K++A LK+HI +H
Sbjct: 84 VRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTH 117
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 43/99 (43%), Gaps = 2/99 (2%)
Query: 3 THSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAG 62
TH+ E C C R+ + +K H H V V + + K +
Sbjct: 66 THTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVH 125
Query: 63 VYGSASSERPYACPYEGCEKAYIHEYKLKLHLKREHPGH 101
+ S + + PY CP+EGC+K + +LK H ++ H G+
Sbjct: 126 QF-SHTQQLPYECPHEGCDKRFSLPSRLKRH-EKVHAGY 162
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 30/84 (35%), Gaps = 33/84 (39%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 69
+IC + DCG Y +KL+ H+ H +
Sbjct: 13 YICSFADCGAAYNKNWKLQAHLCKH---------------------------------TG 39
Query: 70 ERPYACPYEGCEKAYIHEYKLKLH 93
E+P+ C EGCEK + + L H
Sbjct: 40 EKPFPCKEEGCEKGFTSLHHLTRH 63
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 43/102 (42%), Gaps = 10/102 (9%)
Query: 1 MKTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPP 60
M+ H+ E H C + C K Y+ LK H+ SH E P Y E +K
Sbjct: 59 MRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSH-----TGEKP-YMCEHEGCSKAFSNA 112
Query: 61 AGVYG----SASSERPYACPYEGCEKAYIHEYKLKLHLKREH 98
+ + S+E+PY C GC K Y L+ H+K H
Sbjct: 113 SDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 33.9 bits (76), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 10/95 (10%)
Query: 12 CPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSA---- 67
C + C + + + +L +HI S H E + ++ +P Y
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHG---ERKEFVCHWGGCSRELRPFKAQYMLVVHMR 60
Query: 68 --SSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
+ E+P+ C +EGC K+Y LK HL R H G
Sbjct: 61 RHTGEKPHKCTFEGCRKSYSRLENLKTHL-RSHTG 94
>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 = 0.030, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 34/89 (38%), Gaps = 34/89 (38%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 69
HIC +P CGK Y LK H +H +
Sbjct: 18 HICSHPGCGKTYFKSSHLKAHTRTH---------------------------------TG 44
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREH 98
E+P++C ++GCE+ + +L H +R H
Sbjct: 45 EKPFSCSWKGCERRFARSDELSRH-RRTH 72
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 15/95 (15%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHE------KNAAVEVPRYATPPERITKTPKPPAGV 63
+IC + DCG Y +KL+ H++ H K E + T +T+ G
Sbjct: 4 YICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCE--KGFTSLHHLTRHSLTHTG- 60
Query: 64 YGSASSERPYACPYEGCEKAYIHEYKLKLHLKREH 98
E+ + C +GC+ + + +K H R H
Sbjct: 61 ------EKNFTCDSDGCDLRFTTKANMKKHFNRFH 89
>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 = 0.15, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
ERPYACP E C++ + + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHI-RIHTG 31
>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 = 0.19, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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: 5 SQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGV- 63
S+ H C Y CGK Y LK H+ +H E P + K +
Sbjct: 2 SRTATHTCDYAGCGKTYTKSSHLKAHLRTH-----TGEKPYHCDWDGCGWKFARSDELTR 56
Query: 64 -YGSASSERPYACPYEGCEKAYIHEYKLKLHLKR 96
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 = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 9/89 (10%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGV--YGSA 67
H C Y CGK Y LK H+ +H E P + K + Y
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTH-----TGEKPYHCDWDGCGWKFARSDELTRHYRKH 60
Query: 68 SSERPYACPYEGCEKAYIHEYKLKLHLKR 96
+ RP+ C + C++A+ L LH+KR
Sbjct: 61 TGHRPFQC--QKCDRAFSRSDHLALHMKR 87
>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 = 31.6 bits (70), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 67 ASSERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
AS +RP+ C Y GC K Y L++H R+H G
Sbjct: 1 ASEKRPFMCAYPGCNKRYFKLSHLQMH-SRKHTG 33
Score = 30.8 bits (68), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 36/90 (40%), Gaps = 34/90 (37%)
Query: 11 ICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASSE 70
+C YP C KRY +KL +H+ H K+ E
Sbjct: 8 MCAYPGCNKRY---FKL-SHLQMHSRKHTG-----------------------------E 34
Query: 71 RPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
+PY C ++ CE+ + +LK H +R H G
Sbjct: 35 KPYQCDFKDCERRFSRSDQLKRH-QRRHTG 63
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/92 (20%), Positives = 42/92 (45%), Gaps = 5/92 (5%)
Query: 2 KTHSQENYHICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPA 61
+ H+ E + C + DC +R++ +LK H H V+ + T + +++
Sbjct: 29 RKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRH----TGVKPFQCKTCQRKFSRSDHLKT 84
Query: 62 GVYGSASSERPYACPYEGCEKAYIHEYKLKLH 93
+ + E+P++C + C+K + +L H
Sbjct: 85 HT-RTHTGEKPFSCRWPSCQKKFARSDELVRH 115
>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 = 0.34, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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 = 0.39, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 32/91 (35%), Gaps = 34/91 (37%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 69
H C YP C K Y LK H+ +H +
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTH---------------------------------TG 42
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
E+PY C +EGC+ + +L H R+H G
Sbjct: 43 EKPYKCTWEGCDWRFARSDELTRHY-RKHTG 72
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
ERPYACP E C++ + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHI-RIHTG 31
>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 = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
ERPYACP E C++ + L H+ R H G
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHI-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 = 0.45, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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 = 0.51, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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 = 0.59, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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 = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 6 QENYHICPYPDC---GKRYAHEYKLKNHIASH 34
++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 = 0.88, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLK 95
+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 = 1.8, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 68 SSERPYACPYEGCEKAYIHEYKLKLHLKREH 98
+ 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 = 1.9, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 71 RPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
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 = 28.5 bits (62), Expect = 3.0, Method: Composition-based stats.
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 12 CPYPDCGKRYAHEYKLKNHIASH 34
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 = 3.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 71 RPYACPYEGCEKAYIHEYKLKLHLKREH 98
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 = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 33/86 (38%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 69
++C + +CGK + +LK H SH +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSH---------------------------------TQ 28
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLK 95
+ 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 = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 33/86 (38%)
Query: 10 HICPYPDCGKRYAHEYKLKNHIASHHEKNAAVEVPRYATPPERITKTPKPPAGVYGSASS 69
++C + +CGK + +LK H SH +
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSH---------------------------------TQ 28
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLK 95
+ PY CP+EGC+K + +LK H K
Sbjct: 29 QLPYECPHEGCDKRFSLPSRLKRHEK 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 = 6.6, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 70 ERPYACPYEGCEKAYIHEYKLKLHLKREHPG 100
E+PY C E C KA+IH+ +L+ H +R H G
Sbjct: 10 EKPYNC--EECGKAFIHDSQLQEH-QRIHTG 37
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
0.312 0.129 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,065,103
Number of Sequences: 62578
Number of extensions: 214432
Number of successful extensions: 380
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 279
Number of HSP's gapped (non-prelim): 93
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)