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= 037433
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L1O|A Chain A, Zinc To Cadmium Replacement In The A. Thaliana Superman
Cys2his2 Zinc Finger Induces Structural Rearrangements
Of Typical Dna Base Determinant Positions
pdb|1NJQ|A Chain A, Nmr Structure Of The Single Qalggh Zinc Finger Domain
From Arabidopsis Thaliana Superman Protein
Length = 39
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 19/25 (76%), Positives = 22/25 (88%)
Query: 30 RSYECTFCKRGFTNAQALGGHMNIH 54
RSY C+FCKR F +AQALGGHMN+H
Sbjct: 5 RSYTCSFCKREFRSAQALGGHMNVH 29
>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 = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 32 YECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTHEDYMNPRYIAPIS 91
++C C R F+ + L H+ H ++ A G F S+ H D ++I PI
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDI---QHILPIL 60
Query: 92 SD 93
D
Sbjct: 61 ED 62
>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 = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 27/68 (39%)
Query: 12 HSSSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFIT 71
H + N + T + +R Y C C + F L H IH K++ Q G F
Sbjct: 26 HFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKGFCQ 85
Query: 72 SNPMLTHE 79
S + H+
Sbjct: 86 SRTLAVHK 93
>pdb|2EML|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
752- 784) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 5/39 (12%)
Query: 30 RSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPS 68
+ YEC+ C + F++ Q+L H IH K+ +GPS
Sbjct: 11 KPYECSVCGKAFSHRQSLSVHQRIH-----SGKKPSGPS 44
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 25/57 (43%)
Query: 22 ELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
L S R Y C +C + F + H IH ++ Q G +F S+ ++TH
Sbjct: 20 HLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITH 76
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 20/48 (41%)
Query: 31 SYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
S++C C + F + L H+ IH R Q G F + M H
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKH 48
>pdb|4FMG|A Chain A, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|B Chain B, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|C Chain C, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|D Chain D, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|E Chain E, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|F Chain F, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|G Chain G, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|H Chain H, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|I Chain I, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|J Chain J, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|K Chain K, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|L Chain L, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|M Chain M, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|N Chain N, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|O Chain O, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|P Chain P, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|Q Chain Q, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|R Chain R, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|S Chain S, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMG|T Chain T, Merkel Cell Polyomavirus Vp1 Unassembled Pentamer
pdb|4FMH|A Chain A, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|B Chain B, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|C Chain C, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|D Chain D, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|E Chain E, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|F Chain F, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|G Chain G, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|H Chain H, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|I Chain I, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|J Chain J, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|K Chain K, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|L Chain L, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|M Chain M, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|N Chain N, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|O Chain O, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|P Chain P, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|Q Chain Q, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|R Chain R, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|S Chain S, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMH|T Chain T, Merkel Cell Polyomavirus Vp1 In Complex With
Disialyllactose
pdb|4FMI|A Chain A, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|B Chain B, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|C Chain C, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|D Chain D, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|E Chain E, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|F Chain F, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|G Chain G, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|H Chain H, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|I Chain I, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|J Chain J, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|K Chain K, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|L Chain L, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|M Chain M, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|N Chain N, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|O Chain O, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|P Chain P, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|Q Chain Q, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|R Chain R, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|S Chain S, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMI|T Chain T, Merkel Cell Polyomavirus Vp1 In Complex With
3'-Sialyllactosamine
pdb|4FMJ|A Chain A, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|B Chain B, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|C Chain C, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|D Chain D, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|E Chain E, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|F Chain F, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|G Chain G, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|H Chain H, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|I Chain I, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|J Chain J, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|K Chain K, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|L Chain L, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|M Chain M, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|N Chain N, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|O Chain O, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|P Chain P, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|Q Chain Q, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|R Chain R, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|S Chain S, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
pdb|4FMJ|T Chain T, Merkel Cell Polyomavirus Vp1 In Complex With Gd1a
Oligosaccharide
Length = 289
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 36/80 (45%), Gaps = 18/80 (22%)
Query: 68 SFITSNPMLTH-EDYMNPRYIAPISSDTSRHSPVFESQRNYLRY---YQPSASNPGNP-- 121
S +T +T E Y+NPR +SP + N+ Y QP S+P P
Sbjct: 13 SVVTGEDSITQIELYLNPR--------MGVNSPDLPTTSNWYTYTYDLQPKGSSPDQPIK 64
Query: 122 ---PDYNVPRSESLSMMNED 138
P Y+V R SL M+NED
Sbjct: 65 ENLPAYSVARV-SLPMLNED 83
>pdb|2EMI|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
547- 579) Of Human Zinc Finger Protein 484
Length = 46
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDR 58
+R YEC+ C + F L H IHR ++
Sbjct: 10 ERHYECSECGKAFIQKSTLSMHQRIHRGEK 39
>pdb|2EMZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
628- 660) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPS 68
+R ++C C +GF L GH+ +H ++ +++GPS
Sbjct: 10 ERPFKCNECGKGFGRRSHLAGHLRLHSRE-----KSSGPS 44
>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 = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 27/65 (41%)
Query: 14 SSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSN 73
S N + + + ++ ++C C R F+ + L H+ H ++ A G F S+
Sbjct: 17 SDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSD 76
Query: 74 PMLTH 78
H
Sbjct: 77 ERKRH 81
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding
Protein In Complex With Methylated Cpg Site Dna
Length = 133
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 25/58 (43%)
Query: 21 KELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
+ + S ++ Y C +C++ F A+ H H +R G SFI M +H
Sbjct: 40 RHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSH 97
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 17 ENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHM-NIHRKD 57
E K + +R Y+C C + F N Q + H+ ++H +D
Sbjct: 64 EYRTKHEIHHTGERRYQCLACGKSFINYQFMSSHIKSVHSQD 105
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
+R Y+C C + F+++ L H H ++ G +FI + ++ H
Sbjct: 16 RRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
>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 = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 13 SSSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITS 72
S SDE + + + ++ ++C C R F+ + L H+ H ++ A G F S
Sbjct: 17 SRSDE-LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARS 75
Query: 73 NPMLTH 78
+ H
Sbjct: 76 DERKRH 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 = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 13 SSSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITS 72
S SDE + + + ++ ++C C R F+ + L H+ H ++ A G F S
Sbjct: 16 SRSDE-LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARS 74
Query: 73 NPMLTH 78
+ H
Sbjct: 75 DERKRH 80
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 13 SSSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITS 72
S SDE + + + ++ ++C C R F+ + L H+ H ++ A G F S
Sbjct: 17 SRSDE-LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARS 75
Query: 73 NPMLTH 78
+ H
Sbjct: 76 DERKRH 81
>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 = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 26/65 (40%)
Query: 14 SSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSN 73
S N + + ++ ++C C R F+ +L H+ H ++ A G F T +
Sbjct: 17 SQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLH 76
Query: 74 PMLTH 78
H
Sbjct: 77 TRTRH 81
>pdb|2ENH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
556- 588) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDR 58
++ YEC C++ F++ +L H +H ++
Sbjct: 10 EKPYECDVCRKAFSHHASLTQHQRVHSGEK 39
>pdb|2EMH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
491- 523) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDR 58
+R Y CT C + FT+ L H IH ++
Sbjct: 10 ERPYICTVCGKAFTDRSNLIKHQKIHTGEK 39
>pdb|1ZNF|A Chain A, Three-Dimensional Solution Structure Of A Single Zinc
Finger Dna-Binding Domain
Length = 27
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 32 YECTFCKRGFTNAQALGGHMNIHR 55
Y+C C+R F AL H +H+
Sbjct: 2 YKCGLCERSFVEKSALSRHQRVHK 25
>pdb|4DMV|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
Difficile Toxin A
pdb|4DMW|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
Difficile Toxin A (Tcda) In Complex With Udp And
Manganese
Length = 556
Score = 27.3 bits (59), Expect = 5.3, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 1/78 (1%)
Query: 62 KQTTGPSFITSNPMLTHEDYMNPRYIAPISSDTSRHSPVFESQRNYLRYYQPSASNPGNP 121
K+ S T L E+ NP++ + R +++ Q+ ++ YY+ + P P
Sbjct: 156 KKAIVESSTTEALQLLEEEIQNPQF-DNMKFYKKRMEFIYDRQKRFINYYKSQINKPTVP 214
Query: 122 PDYNVPRSESLSMMNEDQ 139
++ +S +S N D+
Sbjct: 215 TIDDIIKSHLVSEYNRDE 232
>pdb|3SRZ|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
Domain Bound To Udp-Glucose
pdb|3SS1|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
Domain
Length = 555
Score = 27.3 bits (59), Expect = 5.3, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 1/78 (1%)
Query: 62 KQTTGPSFITSNPMLTHEDYMNPRYIAPISSDTSRHSPVFESQRNYLRYYQPSASNPGNP 121
K+ S T L E+ NP++ + R +++ Q+ ++ YY+ + P P
Sbjct: 141 KKAIVESSTTEALQLLEEEIQNPQF-DNMKFYKKRMEFIYDRQKRFINYYKSQINKPTVP 199
Query: 122 PDYNVPRSESLSMMNEDQ 139
++ +S +S N D+
Sbjct: 200 TIDDIIKSHLVSEYNRDE 217
>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed Helical
Filament Form 2
pdb|1U98|A Chain A, "crystal Structure Of E. Coli Reca In A Compressed Helical
Filament Form3"
pdb|1U99|A Chain A, "crystal Structures Of E. Coli Reca In A Compressed
Helical Filament Form 4"
pdb|1XMS|A Chain A, "e. Coli Reca In Complex With Mnamp-Pnp"
pdb|1XMV|A Chain A, "e. Coli Reca In Complex With Mgadp"
Length = 356
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 116 SNPGNPPDYNVPRSESLSMMNED 138
SNP + PD++V SE ++ NED
Sbjct: 333 SNPNSTPDFSVDDSEGVAETNED 355
>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 = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/59 (20%), Positives = 25/59 (42%)
Query: 20 VKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
+ + + ++ ++C C R F+ + L H+ H ++ A G F S+ H
Sbjct: 23 TRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>pdb|3ZEY|V Chain V, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 111
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 2/80 (2%)
Query: 30 RSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTHEDYMNPRYI-- 87
R C C R +++G + D+A A+ S I + + YM RY
Sbjct: 21 RPVHCFNCSRLVPKDKSVGRFVVRRMLDQASARDVAEASLIYGSGFPMPKLYMKQRYCIA 80
Query: 88 APISSDTSRHSPVFESQRNY 107
I S T R PV + +R Y
Sbjct: 81 CAIHSRTVRARPVEDRKRRY 100
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 12/59 (20%), Positives = 25/59 (42%)
Query: 20 VKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
+ + + ++ ++C C R F+ + L H+ H ++ A G F S+ H
Sbjct: 23 TRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy
pdb|2REC|B Chain B, Reca Hexamer Model, Electron Microscopy
pdb|2REC|C Chain C, Reca Hexamer Model, Electron Microscopy
pdb|2REC|D Chain D, Reca Hexamer Model, Electron Microscopy
pdb|2REC|E Chain E, Reca Hexamer Model, Electron Microscopy
pdb|2REC|F Chain F, Reca Hexamer Model, Electron Microscopy
Length = 353
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 116 SNPGNPPDYNVPRSESLSMMNED 138
SNP + PD++V SE ++ NED
Sbjct: 330 SNPNSTPDFSVDDSEGVAETNED 352
>pdb|1N03|A Chain A, Model For Active Reca Filament
pdb|1N03|B Chain B, Model For Active Reca Filament
pdb|1N03|C Chain C, Model For Active Reca Filament
pdb|1N03|D Chain D, Model For Active Reca Filament
pdb|1N03|E Chain E, Model For Active Reca Filament
pdb|1N03|F Chain F, Model For Active Reca Filament
pdb|1N03|G Chain G, Model For Active Reca Filament
pdb|1REA|A Chain A, Structure Of The Reca Protein-Adp Complex
pdb|2REB|A Chain A, The Structure Of The E. Coli Reca Protein Monomer And
Polymer
Length = 352
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 116 SNPGNPPDYNVPRSESLSMMNED 138
SNP + PD++V SE ++ NED
Sbjct: 329 SNPNSTPDFSVDDSEGVAETNED 351
>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 = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/59 (20%), Positives = 25/59 (42%)
Query: 20 VKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFITSNPMLTH 78
+ + + ++ ++C C R F+ + L H+ H ++ A G F S+ H
Sbjct: 23 TRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 25 TSSAKRSYECTF--CKRGFTNAQALGGHMNIHRKDRA 59
T + ++ ++C F C R F N+ HM++H D++
Sbjct: 114 THTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTSDKS 150
>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 = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 23/58 (39%)
Query: 14 SSDENEVKELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPSFIT 71
S N + + ++ ++C C R F+ L H+ H ++ A G F T
Sbjct: 17 SQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFAT 74
>pdb|3OJY|A Chain A, Crystal Structure Of Human Complement Component C8
Length = 554
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/52 (23%), Positives = 29/52 (55%)
Query: 101 FESQRNYLRYYQPSASNPGNPPDYNVPRSESLSMMNEDQLLGANLSLGIGPS 152
F N+L+Y+ + ++ G ++ ++ LS + +D+ +++GIGP+
Sbjct: 176 FRKPYNFLKYHFEALADTGISSEFYDNANDLLSKVKKDKSDSFGVTIGIGPA 227
>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 = 26.6 bits (57), Expect = 8.0, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 21 KELDTSSAKRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQ 63
K + T + R Y CT+C F G++ H K +A +K+
Sbjct: 19 KHIRTHTDVRPYHCTYCNFSFKTK----GNLTKHMKSKAHSKK 57
>pdb|2EOH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
780- 812) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPS 68
K+ YEC C++ F L H +H +R+ +GPS
Sbjct: 10 KKPYECKECRKTFIQIGHLNQHKRVHTGERS-----SGPS 44
>pdb|1SRK|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of
Fog-1
Length = 35
Score = 26.6 bits (57), Expect = 8.9, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 26 SSAKRSYECTFCKRGFTNAQALGGHMNIH 54
SS KR + C C FT H+ +H
Sbjct: 2 SSGKRPFVCRICLSAFTTKANCARHLKVH 30
>pdb|2EP2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
603- 635) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.6 bits (57), Expect = 9.0, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 29 KRSYECTFCKRGFTNAQALGGHMNIHRKDRAKAKQTTGPS 68
++ YEC+ C + FT L H IH ++ +GPS
Sbjct: 10 EKPYECSICGKSFTKKSQLHVHQQIH-----TGEKPSGPS 44
>pdb|2ZTN|A Chain A, Hepatitis E Virus Orf2 (Genotype 3)
Length = 478
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 18/85 (21%)
Query: 74 PMLTHEDYMNPRYIAPISSDTSRHSPVFESQRNYLRYYQPSASNPGNPPDYNVPRSESLS 133
P+ T + Y Y+ P+ R L +++ S + G P +YN S+ +
Sbjct: 397 PLTTIQQYSKTFYVLPL--------------RGKLSFWEASTTKAGYPYNYNTTASDQIL 442
Query: 134 MMNED----QLLGANLSLGIGPSCV 154
+ N + SLG GP+ +
Sbjct: 443 IENAAGHRVAISTYTTSLGAGPTSI 467
>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 = 9.4, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 30 RSYECTFCKRGFTNAQALGGHM-NIHRKDRAKAKQ--TTGPS 68
+ Y C C +GF+ L GH+ +H +R Q +GPS
Sbjct: 11 KPYICQSCGKGFSRPDHLNGHIKQVHTSERPHKCQVWVSGPS 52
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
0.311 0.127 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,507,226
Number of Sequences: 62578
Number of extensions: 218835
Number of successful extensions: 515
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 45
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 447
Number of HSP's gapped (non-prelim): 80
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
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: 48 (23.1 bits)