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= psy13994
(97 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 = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 46/102 (45%), Gaps = 7/102 (6%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR-------DVCNKP 54
C K + +++ L AH ++H G K + C C FSQ R H H C K
Sbjct: 83 CGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKS 142
Query: 55 YHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+ R+ L H ++H G K + C C FS++ + VH H
Sbjct: 143 FSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQRTH 184
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 42/102 (41%), Gaps = 7/102 (6%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR-------DVCNKP 54
C K + R L H ++H G K + C C FS K H H C K
Sbjct: 27 CGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKS 86
Query: 55 YHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+ +++ L AH ++H G K + C C FSQ R H H
Sbjct: 87 FSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTH 128
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 45/102 (44%), Gaps = 7/102 (6%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR-------DVCNKP 54
C K + K L H ++H G K + C C FSQ+ + R H H C K
Sbjct: 55 CGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKS 114
Query: 55 YHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+ + + L AH ++H G K + C C FS++ + H H
Sbjct: 115 FSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTH 156
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 35/94 (37%), Gaps = 7/94 (7%)
Query: 10 SVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR-------DVCNKPYHRKSVLI 62
S +A G K + C C FS+ H H C K + K L
Sbjct: 7 SSSVAQAALEPGEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLT 66
Query: 63 AHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
H ++H G K + C C FSQ+ + R H H
Sbjct: 67 RHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTH 100
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 7/78 (8%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR-------DVCNKP 54
C K + + + L AH ++H G K + C C FS++ + H H C K
Sbjct: 111 CGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKS 170
Query: 55 YHRKSVLIAHLQSHEGVK 72
+ R+ L H ++H G K
Sbjct: 171 FSRRDALNVHQRTHTGKK 188
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR-------DVCNK 53
+C K + R S L HL H + + C+YC RF QK + H H VC K
Sbjct: 6 ICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGK 65
Query: 54 PYHRKSVLIAHLQSHEG 70
+ + S LI H + H G
Sbjct: 66 AFSQSSNLITHSRKHTG 82
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%)
Query: 50 VCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+C K + R S L HL H + + C+YC RF QK + H H
Sbjct: 6 ICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIH 52
>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 = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 42/88 (47%), Gaps = 9/88 (10%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQKISCRVHMLRHRDV-------CN 52
CNK+Y + S L H + H G K + C++ C RFS+ + H RH V C
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQ 73
Query: 53 KPYHRKSVLIAHLQSHEGVKKFGCEYCS 80
+ + R L H ++H G K F C + S
Sbjct: 74 RKFSRSDHLKTHTRTHTGEKPFSCRWPS 101
>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 = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 21/83 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ +K+ L H++ H G K F C C FSQ+ S L
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQAS---------------------L 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFS 84
AH+++H G K F C+ C +F+
Sbjct: 51 NAHIRTHTGEKPFACDICGRKFA 73
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+ C++ + +K+ L H++ H G K F C C FSQ+ S H+ H
Sbjct: 10 ESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTH 57
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 23/35 (65%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFS 35
+C + + +++ L AH+++H G K F C+ C +F+
Sbjct: 39 ICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFA 73
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 40/95 (42%), Gaps = 19/95 (20%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C K Y + S L AHL++H G K + C++ D C + R L
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDW-------------------DGCGWKFARSDEL 53
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
H + H G + F C+ C FS+ +HM RH
Sbjct: 54 TRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKRH 88
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 40/95 (42%), Gaps = 19/95 (20%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C K Y + S L AHL++H G K + C++ D C + R L
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDW-------------------DGCGWKFARSDEL 54
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
H + H G + F C+ C FS+ +HM RH
Sbjct: 55 TRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKRH 89
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 19/96 (19%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C K Y + S L AHL++H G K + C + + C+ + R L
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTW-------------------EGCDWRFARSDEL 63
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR 97
H + H G K F C C+ FS+ +HM RH+
Sbjct: 64 TRHYRKHTGAKPFQCGVCNRSFSRSDHLALHMKRHQ 99
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRD 49
C+ ++ R L H + H G K F C C+ FS+ +HM RH++
Sbjct: 53 CDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHMKRHQN 100
>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 = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 10/105 (9%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR----------DV 50
C+K++ K L H + H G K F C C + +K + H R+ V
Sbjct: 12 TCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSV 71
Query: 51 CNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLR 95
C + + R+ L H+ SH G + C CS +F QK + HM++
Sbjct: 72 CQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIK 116
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 35/88 (39%), Gaps = 14/88 (15%)
Query: 21 GVKKFGCEYCSARFSQKISCRVHMLRHRDV-------CNKPYHRKSVLIAH-----LQSH 68
G C C +F K +VH +H C K Y RK L+ H +
Sbjct: 4 GSSGVECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRS 63
Query: 69 EGVKKFGCEYCSARFSQKISCRVHMLRH 96
E V F C C F +++ R+HM+ H
Sbjct: 64 EQV--FTCSVCQETFRRRMELRLHMVSH 89
>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 = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ R + L H++ H G K F C C FS R L
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFAR 74
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM---LRHRD 49
+C + + R L H+++H G K F C+ C +F++ + H LR +D
Sbjct: 39 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ R + L H++ H G K F C C FS R L
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFAR 74
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM---LRHRD 49
+C + + R L H+++H G K F C+ C +F++ + H LR +D
Sbjct: 39 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ R L H++ H G K F C C FS R L
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFAR 74
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM---LRHRD 49
+C + + R L H+++H G K F C+ C +F++ + H LR +D
Sbjct: 39 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ R L H++ H G K F C C FS R L
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFAR 74
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQ 36
+C + + R L H+++H G K F C+ C +F++
Sbjct: 39 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFAR 74
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ R L H++ H G K F C C FS R L
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 49
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 50 TTHIRTHTGEKPFACDICGRKFAR 73
Score = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQ 36
+C + + R L H+++H G K F C+ C +F++
Sbjct: 38 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFAR 73
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 21/83 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ +K+ L H++ H G K F C C FSQ L
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTG---------------------L 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFS 84
H+++H G K F C+ C +F+
Sbjct: 51 NQHIRTHTGEKPFACDICGRKFA 73
Score = 32.0 bits (71), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+ C++ + +K+ L H++ H G K F C C FSQ H+ H
Sbjct: 10 ESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTH 57
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 21/35 (60%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFS 35
+C + + + + L H+++H G K F C+ C +F+
Sbjct: 39 ICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFA 73
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ S L H++ H G K F C C FS R L
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFAR 74
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM---LRHRD 49
+C + + R L H+++H G K F C+ C +F++ + H LR +D
Sbjct: 39 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
>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 = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 34/77 (44%), Gaps = 7/77 (9%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRD-------VCNK 53
VC K + RK L H++ H GVK + C+ C + S H+ H D +C
Sbjct: 13 VCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPY 72
Query: 54 PYHRKSVLIAHLQSHEG 70
S L HL+SH G
Sbjct: 73 ASRNSSQLTVHLRSHTG 89
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
+VC K + RK L H++ H GVK + C+ C + S H+ H
Sbjct: 12 EVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIH 59
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 35/84 (41%), Gaps = 21/84 (25%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C++++ + L H++ H G K F C C FS R L
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFS---------------------RSDHL 50
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQ 85
H+++H G K F C+ C +F++
Sbjct: 51 TTHIRTHTGEKPFACDICGRKFAR 74
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM---LRHRD 49
+C + + R L H+++H G K F C+ C +F++ + H LR +D
Sbjct: 39 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHLRQKD 90
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
C K + L HL++H G K + CE+C +QK S R H+ RH
Sbjct: 8 SYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 47
C K + L HL++H G K + CE+C +QK S R H+ RH
Sbjct: 10 CGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 21/87 (24%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C K + KS H+ H G++ +GC VC K + K L
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRPYGC---------------------GVCGKKFKMKHHL 53
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQKIS 88
+ H++ H G+K + C C+ RF + S
Sbjct: 54 VGHMKIHTGIKPYECNICAKRFMWRDS 80
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPY 55
VC K++ K L+ H++ H G+K + C C+ RF + S RH C K Y
Sbjct: 42 VCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDS----FHRHVTSCTKSY 92
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDV 50
+C + + R L H+++H G K F C+ C +F++ + RHRD+
Sbjct: 8 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERK----RHRDI 53
Score = 32.3 bits (72), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 50 VCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQ 85
+C + + R L H+++H G K F C+ C +F++
Sbjct: 8 ICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFAR 43
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 37/96 (38%), Gaps = 25/96 (26%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C K + + S L H ++H G K + C C FSQ S L
Sbjct: 10 CGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQ---------------------SSDL 48
Query: 62 IAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR 97
H ++H G K + C C FS+ H+ RH+
Sbjct: 49 QKHQRTHTGEKPYKCPECGKSFSRSD----HLSRHQ 80
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 7/81 (8%)
Query: 23 KKFGCEYCSARFSQKISCRVHMLRHRD-------VCNKPYHRKSVLIAHLQSHEGVKKFG 75
K+F C++C F++ + +H H D +C+K + R+ L H H K F
Sbjct: 16 KEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFK 75
Query: 76 CEYCSARFSQKISCRVHMLRH 96
C+ C F Q + VH H
Sbjct: 76 CQECGKGFCQSRTLAVHKTLH 96
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 47
+C+K + R+ L H H K F C+ C F Q + VH H
Sbjct: 50 ICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKGFCQSRTLAVHKTLH 96
>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 = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 35/82 (42%), Gaps = 11/82 (13%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGC--EYCSARFSQKISCRVHMLRHR---------DV 50
C K + S L H H G K F C E C RFS + R H+ H D
Sbjct: 40 CGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDG 99
Query: 51 CNKPYHRKSVLIAHLQSHEGVK 72
CNK + + + L +H+ +H K
Sbjct: 100 CNKKFAQSTNLKSHILTHAKAK 121
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 45/106 (42%), Gaps = 12/106 (11%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHR---------DVCN 52
C K + S + HL +H G + C C F + + H L H + C
Sbjct: 13 CTKMFRDNSAMRKHLHTH-GPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCG 71
Query: 53 KPYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQKISCRVHMLRH 96
K + L H++ H G + + C + C+ +F+Q + + H+L H
Sbjct: 72 KRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTH 117
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQKISCRVHMLRHRDVCN 52
C K++ L H++ H G + + C + C+ +F+Q + + H+L H N
Sbjct: 70 CGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAKAKN 122
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 36/93 (38%), Gaps = 21/93 (22%)
Query: 3 NKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVLI 62
K + K L+ H++ H G K F C + C K + R L
Sbjct: 69 GKSFKAKYKLVNHIRVHTGEKPFPCPFPG-------------------CGKIFARSENLK 109
Query: 63 AHLQSHEGVKKFGCEY--CSARFSQKISCRVHM 93
H ++H G K F CE+ C RF+ + HM
Sbjct: 110 IHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHM 142
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQKISCRVHMLRHRDVCNKP 54
C K + R L H ++H G K F CE+ C RF+ + HM H + P
Sbjct: 98 CGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTSDKSGP 152
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 36/96 (37%), Gaps = 21/96 (21%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C Y++ L AHL H G K F C+ + C K + L
Sbjct: 11 CGAAYNKNWKLQAHLSKHTGEKPFPCK-------------------EEGCEKGFTSLHHL 51
Query: 62 IAHLQSHEGVKKFGCEY--CSARFSQKISCRVHMLR 95
H +H G K F C+ C RF+ K + + H R
Sbjct: 52 TRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNR 87
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 32.0 bits (71), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 23/55 (41%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPY 55
+C K + L H SH G K + C C RF +K H+ H KPY
Sbjct: 12 ICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPY 66
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 21/48 (43%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
++C K + L H SH G K + C C RF +K H+ H
Sbjct: 11 EICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSH 58
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 36/96 (37%), Gaps = 21/96 (21%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVL 61
C Y++ L AHL H G K F C+ + C K + L
Sbjct: 20 CGAAYNKNWKLQAHLCKHTGEKPFPCK-------------------EEGCEKGFTSLHHL 60
Query: 62 IAHLQSHEGVKKFGCEY--CSARFSQKISCRVHMLR 95
H +H G K F C+ C RF+ K + + H R
Sbjct: 61 TRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNR 96
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQK 37
C K + R S+L+ H + H G K + C C FSQ
Sbjct: 20 CGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQN 55
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 23/64 (35%), Gaps = 21/64 (32%)
Query: 23 KKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSAR 82
K +GC C FS R S+L+ H + H G K + C C
Sbjct: 13 KPYGCVECGKAFS---------------------RSSILVQHQRVHTGEKPYKCLECGKA 51
Query: 83 FSQK 86
FSQ
Sbjct: 52 FSQN 55
>pdb|2DMI|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Like Domains Of Human Teashirt Homolog 3
Length = 115
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 32/89 (35%), Gaps = 12/89 (13%)
Query: 21 GVKKFGCEYCSARFSQKISCRVHM--------LRHRDVCNKP----YHRKSVLIAHLQSH 68
G KF C+ CSA + + VHM H N P RK L+
Sbjct: 16 GASKFRCKDCSAAYDTLVELTVHMNETGHYRDDNHETDNNNPKRWSKPRKRSLLEMEGKE 75
Query: 69 EGVKKFGCEYCSARFSQKISCRVHMLRHR 97
+ K C YC F VHM++ +
Sbjct: 76 DAQKVLKCMYCGHSFESLQDLSVHMIKTK 104
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 19/77 (24%)
Query: 17 QSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDVCNKPYHRKSVLIAHLQSHEGVKKFGC 76
++H G K + C C ARF+Q + ++H+L+ E V KF C
Sbjct: 8 RTHSGEKPYECYICHARFTQSGTMKMHILQKHT-------------------ENVAKFHC 48
Query: 77 EYCSARFSQKISCRVHM 93
+C ++K VH+
Sbjct: 49 PHCDTVIARKSDLGVHL 65
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 66 QSHEGVKKFGCEYCSARFSQKISCRVHMLR 95
++H G K + C C ARF+Q + ++H+L+
Sbjct: 8 RTHSGEKPYECYICHARFTQSGTMKMHILQ 37
>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 = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 47
C++++ R L H++ H G K F C C FS+ H+ H
Sbjct: 27 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 51 CNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
C++ + R L H++ H G K F C C FS+ H+ H
Sbjct: 27 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQ 36
C K Y + S L AH ++H G K F C + C RF++
Sbjct: 25 CGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFAR 61
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 41 RVHMLRHRDVCNKPYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQ 85
R H+ H C K Y + S L AH ++H G K F C + C RF++
Sbjct: 16 RSHICSH-PGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFAR 61
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 34/81 (41%), Gaps = 12/81 (14%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEY--CSARFSQ-----KISCRVHMLRHRDVCNKP 54
C K Y R L HL+SH G K + CE+ CS FS K R H VC P
Sbjct: 75 CRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLP 134
Query: 55 -----YHRKSVLIAHLQSHEG 70
Y S L H+++ G
Sbjct: 135 GCTKRYTDPSSLRKHVKTVHG 155
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
D C + K L +H H G K + C C A+F++ + + H H
Sbjct: 21 DRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIH 68
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 47
C + K L +H H G K + C C A+F++ + + H H
Sbjct: 23 CQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIH 68
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRH 96
D C K + S L H ++H G K + C+ C F Q R H++ H
Sbjct: 22 DECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQ----RSHLIGH 65
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDV 50
C K + S L H ++H G K + C+ C F Q R H++ H V
Sbjct: 24 CGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQ----RSHLIGHHRV 68
>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double
Cys2His2 Zinc Finger From The Human Enhancer Binding
Protein Mbp-1
Length = 57
Score = 28.9 bits (63), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 23/43 (53%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM 44
C + + S+L H+++H V+ + C YC+ F K + HM
Sbjct: 7 CGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHM 49
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 57 RKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRVHM 93
+ S+L H+++H V+ + C YC+ F K + HM
Sbjct: 13 KPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHM 49
>pdb|3SOE|A Chain A, Crystal Structure Of The 3rd Pdz Domain Of The Human
Membrane- Associated Guanylate Kinase, Ww And Pdz
Domain-Containing Protein 3 (Magi3)
Length = 113
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 7 HRKSVLIAHLQSHEGVKKFGCEYCSARFSQKISCRV-----HMLRHRDVCNKPYHRKSVL 61
++K+ L+ + +G K FG + QK+ + L+ D+ + YH+
Sbjct: 7 YKKAGLLVTIPLIKGPKGFGFAIADSPTGQKVKMILDSQWCQGLQKGDIIKEIYHQNVQN 66
Query: 62 IAHLQSHEGVKKF 74
+ HLQ E +K+F
Sbjct: 67 LTHLQVVEVLKQF 79
>pdb|1SKZ|A Chain A, Protease Inhibitor
Length = 119
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 6/70 (8%)
Query: 24 KFGCEYCSARF-SQKISCRVHMLRHRDVCNKPYHRKSVLI---AHLQSHEGVK--KFGCE 77
++GCE+C R K +C + +C++ ++ I G+K K GCE
Sbjct: 45 RYGCEFCKCRLEPMKATCDISECPEGMMCSRLTNKCDCKIDINCRKTCPNGLKRDKLGCE 104
Query: 78 YCSARFSQKI 87
YC R +K+
Sbjct: 105 YCECRPKRKL 114
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Transcriptional Repressor Ctcf
Length = 86
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 11/62 (17%)
Query: 17 QSHEGVKKFGCEYCSARFSQKISCRVHMLRHRDV-----------CNKPYHRKSVLIAHL 65
++H G K + C +C F QK +H R+ D C K + R++ + H
Sbjct: 8 RTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHA 67
Query: 66 QS 67
+
Sbjct: 68 DN 69
>pdb|2EL4|A Chain A, Solution Structure Of The 15th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 46
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFG 26
C K + KS LI H +SH GVK G
Sbjct: 18 CAKTFSLKSQLIVHQRSHTGVKPSG 42
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 51 CNKPYHRKSVLIAHLQSHEGVKKFG 75
C K + KS LI H +SH GVK G
Sbjct: 18 CAKTFSLKSQLIVHQRSHTGVKPSG 42
>pdb|2EN6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
887- 919) Of Human Zinc Finger Protein 268
Length = 46
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFG 26
C K + +KS+L AH ++H G K G
Sbjct: 18 CGKTFSQKSILSAHQRTHTGEKPSG 42
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFG 75
+ C K + +KS+L AH ++H G K G
Sbjct: 16 NECGKTFSQKSILSAHQRTHTGEKPSG 42
>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 = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 23 KKFGCEYCSARFSQKISCRVHMLRH 47
K + CE C ARF Q R H+L H
Sbjct: 10 KPYKCETCGARFVQVAHLRAHVLIH 34
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 72 KKFGCEYCSARFSQKISCRVHMLRH 96
K + CE C ARF Q R H+L H
Sbjct: 10 KPYKCETCGARFVQVAHLRAHVLIH 34
>pdb|2YTQ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
775- 807) Of Human Zinc Finger Protein 268
Length = 46
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFG 26
C K + KS LI H+++H G K G
Sbjct: 18 CGKAFSSKSYLIIHMRTHSGEKPSG 42
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 51 CNKPYHRKSVLIAHLQSHEGVKKFG 75
C K + KS LI H+++H G K G
Sbjct: 18 CGKAFSSKSYLIIHMRTHSGEKPSG 42
>pdb|2EOG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
693- 723) Of Human Zinc Finger Protein 268
Length = 44
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFG 26
C K + KS LI H+++H G K G
Sbjct: 16 CGKAFRSKSYLIIHMRTHTGEKPSG 40
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 51 CNKPYHRKSVLIAHLQSHEGVKKFG 75
C K + KS LI H+++H G K G
Sbjct: 16 CGKAFRSKSYLIIHMRTHTGEKPSG 40
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 49 DVCNKPYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQK 86
+VC + + R+ L H +SH K + C C+ F+++
Sbjct: 6 EVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRR 43
Score = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 1 VCNKQYHRKSVLIAHLQSHEGVKKFGCEYCSARFSQK 37
VC + + R+ L H +SH K + C C+ F+++
Sbjct: 7 VCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRR 43
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 25 FGCEYCSARFSQKISCRVHMLRHRD-------VCNKPYHRKSVLIAHLQ 66
F CE C+ F+++ + H H + +CN+ + R+ +LI H Q
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQ 51
>pdb|2YTP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
687- 719) Of Human Zinc Finger Protein 484
Length = 46
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 2 CNKQYHRKSVLIAHLQSHEGVKKFG 26
C K + RKS LI H + H G K G
Sbjct: 18 CGKAFARKSTLIMHQRIHTGEKPSG 42
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 51 CNKPYHRKSVLIAHLQSHEGVKKFG 75
C K + RKS LI H + H G K G
Sbjct: 18 CGKAFARKSTLIMHQRIHTGEKPSG 42
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
0.330 0.136 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,808,936
Number of Sequences: 62578
Number of extensions: 91996
Number of successful extensions: 736
Number of sequences better than 100.0: 70
Number of HSP's better than 100.0 without gapping: 64
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 475
Number of HSP's gapped (non-prelim): 201
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)