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= psy6273
(82 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 8 ACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPL 67
+CD + LD HI +HT K F C C+ F ++ L QH R E F+C +
Sbjct: 11 SCDRRFSQKTNLDTHIR-IHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGE--KPFACDI 67
Query: 68 CGEVF 72
CG F
Sbjct: 68 CGRKF 72
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKT 44
++C C L+ HI HT K FACD C F T
Sbjct: 35 FQCRICMRNFSQHTGLNQHIR-THTGEKPFACDICGRKFAT 74
>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 = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLF 63
YKC C L H HT K + C +C F +S L +H+R E +
Sbjct: 5 YKCPECGKSFSQSSNLQKHQR-THTGEKPYKCPECGKSFSQSSDLQKHQRTHTGE--KPY 61
Query: 64 SCPLCGEVF 72
CP CG+ F
Sbjct: 62 KCPECGKSF 70
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 31 KSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVF 72
K + C +C F +S L +H+R E + CP CG+ F
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGE--KPYKCPECGKSF 42
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 34/79 (43%), Gaps = 9/79 (11%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLF 63
YKC C ++ L H HT K + C +C F + L H+R E +
Sbjct: 50 YKCPECGKSFSDKKDLTRHQR-THTGEKPYKCPECGKSFSQRANLRAHQRTHTGE--KPY 106
Query: 64 SCPLCGEVF------RSHQ 76
+CP CG+ F R+HQ
Sbjct: 107 ACPECGKSFSQLAHLRAHQ 125
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLF 63
YKC C R L H HT K +AC +C F + L H+R E +
Sbjct: 78 YKCPECGKSFSQRANLRAHQR-THTGEKPYACPECGKSFSQLAHLRAHQRTHTGE--KPY 134
Query: 64 SCPLCGEVF 72
CP CG+ F
Sbjct: 135 KCPECGKSF 143
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 26 VHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFRSHQGYKIH 81
HT K + C +C F L +H+R E + CP CG+ F + H
Sbjct: 43 THTGEKPYKCPECGKSFSDKKDLTRHQRTHTGE--KPYKCPECGKSFSQRANLRAH 96
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 26 VHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFRSHQGYKIH 81
HT K + C +C F L H+R E + CP CG+ F +H
Sbjct: 127 THTGEKPYKCPECGKSFSREDNLHTHQRTHTGE--KPYKCPECGKSFSRRDALNVH 180
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 31 KSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVF 72
K +AC +C F + L +H+R E + CP CG+ F
Sbjct: 20 KPYACPECGKSFSRSDHLAEHQRTHTGE--KPYKCPECGKSF 59
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKR 53
YKC C L H HT K + C +C F AL H+R
Sbjct: 134 YKCPECGKSFSREDNLHTHQR-THTGEKPYKCPECGKSFSRRDALNVHQR 182
>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 = 35.4 bits (80), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 8 ACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPL 67
+CD + LD HI +HT K F C C+ F ++L H R E F+C +
Sbjct: 11 SCDRRFSQKTNLDTHIR-IHTGQKPFQCRICMRNFSQQASLNAHIRTHTGE--KPFACDI 67
Query: 68 CGEVF 72
CG F
Sbjct: 68 CGRKF 72
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKT 44
++C C + +L+ HI HT K FACD C F T
Sbjct: 35 FQCRICMRNFSQQASLNAHIR-THTGEKPFACDICGRKFAT 74
>pdb|3IYL|X Chain X, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|Y Chain Y, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 1214
Score = 32.7 bits (73), Expect = 0.051, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 32 SFACDQCVSYFKTNSALLQHKRKMH-DEFVNLFSCPLCGEVFRS 74
S+ C+ C + F T SAL +H R H D+ L + P+ RS
Sbjct: 116 SYVCNVCNARFSTMSALSEHLRSDHRDDASTLLATPMINNAIRS 159
>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1196
Score = 32.7 bits (73), Expect = 0.051, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 32 SFACDQCVSYFKTNSALLQHKRKMH-DEFVNLFSCPLCGEVFRS 74
S+ C+ C + F T SAL +H R H D+ L + P+ RS
Sbjct: 98 SYVCNVCNARFSTMSALSEHLRSDHRDDASTLLATPMINNAIRS 141
>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 = 32.3 bits (72), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 27 HTETKSFACDQCVS-YFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFRSHQGYKIH 81
HT K F C +C YF+ + L R + +F+C +C E FR ++H
Sbjct: 30 HTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLH 85
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc
Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt
Site)
Length = 90
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 34/79 (43%), Gaps = 6/79 (7%)
Query: 7 HACDVETKTRQALDNHILC----VHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNL 62
+AC VE+ R+ D+ L +HT K F C C+ F + L H R E
Sbjct: 5 YACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--KP 62
Query: 63 FSCPLCGEVFRSHQGYKIH 81
F+C +CG F K H
Sbjct: 63 FACDICGRKFARSDERKRH 81
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 32.0 bits (71), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 7 HACDVETKTRQ-----ALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVN 61
+AC VE+ R+ +L HI +HT K F C C+ F + L H R E
Sbjct: 5 YACPVESCDRRFSQSGSLTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--K 61
Query: 62 LFSCPLCGEVF 72
F+C +CG F
Sbjct: 62 PFACDICGRKF 72
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 31.2 bits (69), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 29/74 (39%), Gaps = 3/74 (4%)
Query: 8 ACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPL 67
+CD L HI +HT K F C C+ F + L H R E F+C +
Sbjct: 11 SCDRRFSRSDELTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--KPFACDI 67
Query: 68 CGEVFRSHQGYKIH 81
CG F K H
Sbjct: 68 CGRKFARSDERKRH 81
>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 = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 7 HACDVETKTRQ-----ALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVN 61
+AC VE+ R+ L HI +HT K F C C+ F + L H R E
Sbjct: 5 YACPVESCDRRFSRSAELTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--K 61
Query: 62 LFSCPLCGEVFRSHQGYKIH 81
F+C +CG F K H
Sbjct: 62 PFACDICGRKFARSDERKRH 81
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 7 HACDVETKTRQ-----ALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVN 61
+AC VE+ R+ L HI +HT K F C C+ F + L H R E
Sbjct: 4 YACPVESCDRRFSRSDELTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--K 60
Query: 62 LFSCPLCGEVFRSHQGYKIH 81
F+C +CG F K H
Sbjct: 61 PFACDICGRKFARSDERKRH 80
>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 = 0.15, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 29/74 (39%), Gaps = 3/74 (4%)
Query: 8 ACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPL 67
+CD L HI +HT K F C C+ F + L H R E F+C +
Sbjct: 11 SCDRRFSRSDELTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--KPFACDI 67
Query: 68 CGEVFRSHQGYKIH 81
CG F K H
Sbjct: 68 CGRKFARSDERKRH 81
>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 = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 7 HACDVETKTRQ-----ALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVN 61
+AC VE+ R+ L HI +HT K F C C+ F + L H R E
Sbjct: 5 YACPVESCDRRFSRSADLTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE--K 61
Query: 62 LFSCPLCGEVFRSHQGYKIH 81
F+C +CG F K H
Sbjct: 62 PFACDICGRKFARSDERKRH 81
>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 = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 8 ACDVETKTRQALDNHILCVHTETKSFACDQ--CVSYFKTNSALLQHKRKMHDEFVNLFSC 65
C+ + L H L HT K+F CD C F T + + +H + H+ + ++ C
Sbjct: 49 GCEKGFTSLHHLTRHSL-THTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVC 107
Query: 66 PL--CGEVFRSHQGYKIH 81
CG+ F+ H K+H
Sbjct: 108 HFENCGKAFKKHNQLKVH 125
>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 = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 3 RYKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQH-KRKMHDE 58
+Y C C + K L HI HT+ + + C C FKT L +H K K H +
Sbjct: 1 KYICEECGIRXKKPSMLKKHIR-THTDVRPYHCTYCNFSFKTKGNLTKHMKSKAHSK 56
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 26/67 (38%), Gaps = 7/67 (10%)
Query: 3 RYKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNL 62
RYKC C L H HT K + CD+C F S L+ H R V+
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRR-THTGEKPYKCDECGKAFIQRSHLIGHHR------VHT 70
Query: 63 FSCPLCG 69
S P G
Sbjct: 71 GSGPSSG 77
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 29 ETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVF--RSH 75
E + + CD+C F +S L +H+R E + C CG+ F RSH
Sbjct: 15 ERRRYKCDECGKSFSHSSDLSKHRRTHTGE--KPYKCDECGKAFIQRSH 61
>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 = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKR 53
YKC CD +L+ H+ +H++ + F C C + +S L H R
Sbjct: 37 YKCKTCDYAAADSSSLNKHLR-IHSDERPFKCQICPYASRNSSQLTVHLR 85
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 32/78 (41%), Gaps = 3/78 (3%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLF 63
+KC C + L H+ C HT K + C C +S+L +H R DE F
Sbjct: 9 HKCEVCGKCFSRKDKLKTHMRC-HTGVKPYKCKTCDYAAADSSSLNKHLRIHSDE--RPF 65
Query: 64 SCPLCGEVFRSHQGYKIH 81
C +C R+ +H
Sbjct: 66 KCQICPYASRNSSQLTVH 83
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Transcriptional Repressor Ctcf
Length = 86
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 26 VHTETKSFACDQCVSYFKTNSALLQHKRKMHDE-FVN-LFSCPLCGEVF 72
HT K +AC C F+ L H ++ HD FV F C CG+ F
Sbjct: 9 THTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTF 57
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 26 VHTETKSFACDQCVSYFKTNSALLQHKR 53
VHT K + C +C F NS L+ H+R
Sbjct: 36 VHTGEKPYKCLECGKAFSQNSGLINHQR 63
Score = 28.5 bits (62), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 31 KSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFRSHQG 77
K + C +C F +S L+QH+R E + C CG+ F + G
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQRVHTGE--KPYKCLECGKAFSQNSG 57
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLF 63
+ C C K L H+L +H++T+ + C C F S + +H E
Sbjct: 2 FDCKICGKSFKRSSTLSTHLL-IHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGE--KPH 58
Query: 64 SCPLCGEVF 72
C +CG+ F
Sbjct: 59 KCQVCGKAF 67
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRK 54
Y C C + + H +HT K C C F +S L+ H RK
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTF-IHTGEKPHKCQVCGKAFSQSSNLITHSRK 79
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 26/67 (38%), Gaps = 6/67 (8%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTET-KSFACDQCVSYFKTNSALLQHKRKMHDEFVNL 62
Y+C+ C + HIL HTE F C C + S L H RK H
Sbjct: 16 YECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQHS----- 70
Query: 63 FSCPLCG 69
+S P G
Sbjct: 71 YSGPSSG 77
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 20/47 (42%)
Query: 26 VHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVF 72
H+ K + C C + F + + H + H E V F CP C V
Sbjct: 9 THSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVI 55
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 4 YKCHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKR 53
YKC C + + L +H VHT K + C+ C + F + L H R
Sbjct: 18 YKCDRCQASFRYKGNLASHKT-VHTGEKPYRCNICGAQFNRPANLKTHTR 66
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 31 KSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFRSHQGYKIH 81
K + CD+C + F+ L HK E + C +CG F K H
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGE--KPYRCNICGAQFNRPANLKTH 64
>pdb|3BC8|A Chain A, Crystal Structure Of Mouse Selenocysteine Synthase
pdb|3BCA|A Chain A, Crystal Structure Of Mouse Selenocysteine Synthase, Sodium
Iodide Soak
pdb|3BCB|A Chain A, Crystal Structure Of Mouse Selenocysteine Synthase, Sodium
Phosphate Soak
Length = 450
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 11 VETKTRQALDNHILCVHTETKSFA 34
VE K ++ HILC+H+ T FA
Sbjct: 187 VEAKIQELGPEHILCLHSTTACFA 210
>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 = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 31 KSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFRSHQGYKIH 81
K F C C +F + LL H+R DE ++C +C + FR + H
Sbjct: 16 KEFICKFCGRHFTKSYNLLIHERTHTDE--RPYTCDICHKAFRRQDHLRDH 64
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 26 VHTETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVF 72
HT+ + + CD C F+ L H R +H + F C CG+ F
Sbjct: 39 THTDERPYTCDICHKAFRRQDHLRDH-RYIHSK-EKPFKCQECGKGF 83
>pdb|2HTV|A Chain A, N4 Neuraminidase
pdb|2HTV|B Chain B, N4 Neuraminidase
pdb|2HTW|A Chain A, N4 Neuraminidase In Complex With Dana
Length = 390
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 32 SFACDQCVSYFKTNSALLQHKR-----KMHDEFVNLFSCPL 67
S + ++C ++F T ALL K K F L SCP+
Sbjct: 42 SCSINECRTFFLTQGALLNDKHSNGTVKDRSPFRTLMSCPI 82
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 25.8 bits (55), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 31 KSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFR 73
+ F C+ C ++ S L +H+R H + SCP CG+ FR
Sbjct: 3 RPFFCNFCGKTYRDASGLSRHRR-AHLGYRPR-SCPECGKCFR 43
>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
From Human Insulinoma-Associated Protein 1 (Fragment
424-497), Northeast Structural Genomics Consortium
Target Hr7614b
Length = 85
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 6 CHACDVETKTRQALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKRKMHD 57
C C ++ A + H+ +H + F C C + F ++ L +H K H
Sbjct: 31 CPVCGESFASKGAQERHLRLLHA-AQVFPCKYCPATFYSSPGLTRHINKCHP 81
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 28 TETKSFACDQCVSYFKTNSALLQHKRKMHDEFVNLFSCPLCGEVFR 73
+ + AC+ C F+ L +HK E +SCP+CG F+
Sbjct: 3 SGSSGVACEICGKIFRDVYHLNRHKLSHSGE--KPYSCPVCGLRFK 46
>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 = 25.0 bits (53), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 6/58 (10%)
Query: 1 MTRYKCHACDVETKTRQ-----ALDNHILCVHTETKSFACDQCVSYFKTNSALLQHKR 53
+ + + +AC VE+ R+ L HI +HT K F C C+ F + L H R
Sbjct: 14 VPKMRPYACPVESCDRRFSRSDELTRHIR-IHTGQKPFQCRICMRNFSRSDHLTTHIR 70
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
0.328 0.135 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,292,988
Number of Sequences: 62578
Number of extensions: 68218
Number of successful extensions: 422
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 342
Number of HSP's gapped (non-prelim): 96
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)