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= psy2414
(114 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 = 32.3 bits (72), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 28/54 (51%), Gaps = 9/54 (16%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKRVH 84
YKC C KS SR +L TH R H KCP C +SR D L +H +R H
Sbjct: 134 YKCPECGKSF-SREDNLHTH-QRTHTGEKPYKCPECGKSFSRRDALNVH-QRTH 184
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 37 YKCVICLKSVRSR---WHHLQTHFSRN-HKCPYCESVYSRVDTLKLHAKRVH 84
YKC C KS + H +TH +KCP C +S+ L+ H +R H
Sbjct: 50 YKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAH-QRTH 100
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
Query: 37 YKCVIC----LKSVRSRWHHLQTHFSRNHK--CPYCESVYSRVDTLKLHAKRVH 84
Y+C IC +S + H LQ H K CP+C++V +R L +H ++ H
Sbjct: 16 YECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQH 69
>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 = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 38 KCVICLKSVRSRWH---HLQTHFSRN-HKCPYCESVYSRVDTLKLHAKRVH 84
+C C K RS ++ HL+TH +KC +CE ++ +L+ H +R H
Sbjct: 6 ECSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56
>pdb|2M0E|A Chain A, Solution Structure Of Miz-1 Zinc Finger 6
Length = 29
Score = 28.9 bits (63), Expect = 0.78, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 59 RNHKCPYCESVYSRVDTLKLHAK 81
+ HKCP+C+ +++V LK H K
Sbjct: 1 KEHKCPHCDKKFNQVGNLKAHLK 23
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNHK------CPYCESVYSRVDTLKLHAKRVH 84
+ C +C ++ +R HL+ H+ R+H C C ++R D L HA+++H
Sbjct: 3 FVCEVCTRAF-ARQEHLKRHY-RSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
>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 = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 26/54 (48%), Gaps = 9/54 (16%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKRVH 84
YKC C KS S+ LQ H R H KCP C +SR D L H +R H
Sbjct: 33 YKCPECGKSF-SQSSDLQKH-QRTHTGEKPYKCPECGKSFSRSDHLSRH-QRTH 83
>pdb|1P7A|A Chain A, Solution Stucture Of The Third Zinc Finger From Bklf
Length = 37
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 62 KCPYCESVYSRVDTLKLHAKR 82
+CP C+ +SR D L LH KR
Sbjct: 13 QCPDCDRSFSRSDHLALHRKR 33
>pdb|1U85|A Chain A, Arg326-Trp Mutant Of The Third Zinc Finger Of Bklf
Length = 33
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 62 KCPYCESVYSRVDTLKLHAKR 82
+CP C+ +SR D L LH KR
Sbjct: 9 QCPDCDWSFSRSDHLALHRKR 29
>pdb|3PI6|A Chain A, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H177y Mutation
pdb|3PI6|B Chain B, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H177y Mutation
pdb|3PI6|C Chain C, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H177y Mutation
pdb|3PI6|D Chain D, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H177y Mutation
Length = 301
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 10/43 (23%)
Query: 67 ESVYSRVDTLKLHAKR---------VHGLGISRY-IHGLIPQL 99
ES Y VD +KLH + VHG G + Y H L+P+L
Sbjct: 11 ESAYREVDGVKLHYVKGGQGPLVMLVHGFGQTWYEWHQLMPEL 53
>pdb|3KD2|A Chain A, Crystal Structure Of The Cftr Inhibitory Factor Cif
pdb|3KD2|B Chain B, Crystal Structure Of The Cftr Inhibitory Factor Cif
pdb|3KD2|C Chain C, Crystal Structure Of The Cftr Inhibitory Factor Cif
pdb|3KD2|D Chain D, Crystal Structure Of The Cftr Inhibitory Factor Cif
Length = 301
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 10/43 (23%)
Query: 67 ESVYSRVDTLKLHAKR---------VHGLGISRY-IHGLIPQL 99
ES Y VD +KLH + VHG G + Y H L+P+L
Sbjct: 11 ESAYREVDGVKLHYVKGGQGPLVMLVHGFGQTWYEWHQLMPEL 53
>pdb|3KDA|A Chain A, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H269a Mutation
pdb|3KDA|B Chain B, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H269a Mutation
pdb|3KDA|C Chain C, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H269a Mutation
pdb|3KDA|D Chain D, Crystal Structure Of The Cftr Inhibitory Factor Cif With
The H269a Mutation
Length = 301
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 10/43 (23%)
Query: 67 ESVYSRVDTLKLHAKR---------VHGLGISRY-IHGLIPQL 99
ES Y VD +KLH + VHG G + Y H L+P+L
Sbjct: 11 ESAYREVDGVKLHYVKGGQGPLVMLVHGFGQTWYEWHQLMPEL 53
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide
Reveals An Extension To The Rules For Zinc-FingerDNA
RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide
Reveals An Extension To The Rules For Zinc-FingerDNA
RECOGNITION
Length = 66
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 37 YKCVICLK---SVRSRWHHLQTHFSRNHK---CPYCESVYSRVDTLKLHAKRVHGL 86
Y+C +C + + + H T RN K CP+C ++R D + H K +H +
Sbjct: 11 YRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVKIIHKI 66
>pdb|1HQM|C Chain C, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 1119
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 14/32 (43%)
Query: 27 FYPDPASPGMYKCVICLKSVRSRWHHLQTHFS 58
F PDPA PG Y I R W L+ S
Sbjct: 148 FTPDPARPGRYIASIIPLPKRGPWIDLEVEAS 179
>pdb|1YNJ|C Chain C, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|C Chain C, Taq Rna Polymerase-rifampicin Complex
pdb|2GHO|C Chain C, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
Length = 1119
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 14/32 (43%)
Query: 27 FYPDPASPGMYKCVICLKSVRSRWHHLQTHFS 58
F PDPA PG Y I R W L+ S
Sbjct: 148 FTPDPARPGRYIASIIPLPKRGPWIDLEVEAS 179
>pdb|1L9U|C Chain C, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|L Chain L, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|C Chain C, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 1118
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 14/32 (43%)
Query: 27 FYPDPASPGMYKCVICLKSVRSRWHHLQTHFS 58
F PDPA PG Y I R W L+ S
Sbjct: 148 FTPDPARPGRYIASIIPLPKRGPWIDLEVEAS 179
>pdb|1I6V|C Chain C, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
Length = 1118
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 14/32 (43%)
Query: 27 FYPDPASPGMYKCVICLKSVRSRWHHLQTHFS 58
F PDPA PG Y I R W L+ S
Sbjct: 148 FTPDPARPGRYIASIIPLPKRGPWIDLEVEAS 179
>pdb|2LO4|A Chain A, Nmr Solution Structure Of Optineurin Zinc-finger Domain
Length = 51
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 61 HKCPYCESVYSRVDTLKLHA 80
H CP C V +DTL++H
Sbjct: 27 HSCPKCGEVLPDIDTLQIHV 46
>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 = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 9/43 (20%)
Query: 52 HLQTHFSRNH------KCPY--CESVYSRVDTLKLHAKRVHGL 86
HLQ H SR H +C + CE +SR D LK H +R G+
Sbjct: 23 HLQMH-SRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGV 64
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 62 KCPYCESVYSRVDTLKLHAKR 82
+C C+ +SR D L LH KR
Sbjct: 68 QCQKCDRAFSRSDHLALHMKR 88
>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 = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 61 HKCPYCESVYSRVDTLKLHAK 81
HKC C +SR D LK H +
Sbjct: 9 HKCEVCGKCFSRKDKLKTHMR 29
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 62 KCPYCESVYSRVDTLKLHAKR 82
+C C+ +SR D L LH KR
Sbjct: 67 QCQKCDRAFSRSDHLALHMKR 87
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
0.325 0.140 0.465
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,955,509
Number of Sequences: 62578
Number of extensions: 140409
Number of successful extensions: 372
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 345
Number of HSP's gapped (non-prelim): 36
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)