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= 013454
(442 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VUS|I Chain I, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|J Chain J, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|K Chain K, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|L Chain L, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|M Chain M, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|N Chain N, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|O Chain O, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|P Chain P, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUT|I Chain I, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|J Chain J, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|K Chain K, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|L Chain L, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|M Chain M, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|N Chain N, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|O Chain O, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|P Chain P, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|I Chain I, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|J Chain J, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|K Chain K, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|L Chain L, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|M Chain M, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|N Chain N, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|O Chain O, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|P Chain P, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
Length = 43
Score = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 15/27 (55%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACG 33
C +C +TPLWR P +P LCNACG
Sbjct: 4 CTNCFTQTTPLWRRNPEGQP-LCNACG 29
>pdb|4HC7|A Chain A, Crystal Structure Of The Full Dna Binding Domain Of
Gata3-Complex 2
pdb|4HC7|B Chain B, Crystal Structure Of The Full Dna Binding Domain Of
Gata3-Complex 2
pdb|4HC9|A Chain A, Dna Binding By Gata Transcription Factor-Complex 3
pdb|4HCA|A Chain A, Dna Binding By Gata Transcription Factor-Complex 1
Length = 115
Score = 37.0 bits (84), Expect = 0.021, Method: Composition-based stats.
Identities = 19/40 (47%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 1 MGKQGPCYHCGVTSTPLWRNGPPEKPVLCNACGSRWRTKG 40
MG++ C +CG TSTPLWR LCNACG + G
Sbjct: 4 MGRE--CVNCGATSTPLWRRDGTGH-YLCNACGLYHKMNG 40
Score = 32.3 bits (72), Expect = 0.54, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACGSRWR 37
C +C T+T LWR PV CNACG ++
Sbjct: 62 CANCQTTTTTLWRRNANGDPV-CNACGLYYK 91
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of
Murine Gata-1, Nmr, 25 Structures
Length = 46
Score = 35.8 bits (81), Expect = 0.054, Method: Composition-based stats.
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACGSRWRTKG 40
C +CG T+TPLWR LCNACG + G
Sbjct: 7 CVNCGATATPLWRRDRTGH-YLCNACGLYHKMNG 39
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 35.8 bits (81), Expect = 0.054, Method: Composition-based stats.
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACGSRWRTKG 40
C +CG T+TPLWR LCNACG + G
Sbjct: 7 CVNCGATATPLWRRDRTGH-YLCNACGLYHKMNG 39
>pdb|2L6Y|A Chain A, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid
pdb|2L6Z|A Chain A, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid With Fog
Length = 39
Score = 35.4 bits (80), Expect = 0.062, Method: Composition-based stats.
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACGSRWRTKG 40
C +CG T+TPLWR LCNACG + G
Sbjct: 5 CVNCGATATPLWRRDRTGH-YLCNACGLYHKMNG 37
>pdb|3VD6|C Chain C, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P21 Crystal Form
pdb|3VEK|C Chain C, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P1 Crystal Form
pdb|3VEK|F Chain F, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P1 Crystal Form
Length = 119
Score = 35.4 bits (80), Expect = 0.064, Method: Composition-based stats.
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACGSRWRTKG 40
C +CG T+TPLWR LCNACG + G
Sbjct: 5 CVNCGATATPLWRRDRTGH-YLCNACGLYHKMNG 37
>pdb|4GAT|A Chain A, Solution Nmr Structure Of The Wild Type Dna Binding
Domain Of Area Complexed To A 13bp Dna Containing A
Cgata Site, Regularized Mean Structure
pdb|5GAT|A Chain A, Solution Nmr Structure Of The Wild Type Dna Binding
Domain Of Area Complexed To A 13bp Dna Containing A
Cgata Site, 35 Structures
Length = 66
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 3 KQGP--CYHCGVTSTPLWRNGPPEKPVLCNACG 33
+ GP C +C +TPLWR P +P LCNACG
Sbjct: 6 QNGPTTCTNCFTQTTPLWRRNPEGQP-LCNACG 37
>pdb|7GAT|A Chain A, Solution Nmr Structure Of The L22v Mutant Dna Binding
Domain Of Area Complexed To A 13 Bp Dna Containing A
Tgata Site, 34 Structures
pdb|6GAT|A Chain A, Solution Nmr Structure Of The L22v Mutant Dna Binding
Domain Of Area Complexed To A 13 Bp Dna Containing A
Tgata Site, Regularized Mean Structure
Length = 66
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 3 KQGP--CYHCGVTSTPLWRNGPPEKPVLCNACG 33
+ GP C +C +TP+WR P +P LCNACG
Sbjct: 6 QNGPTTCTNCFTQTTPVWRRNPEGQP-LCNACG 37
>pdb|3DFV|D Chain D, Adjacent Gata Dna Binding
pdb|3DFV|C Chain C, Adjacent Gata Dna Binding
pdb|3DFX|A Chain A, Opposite Gata Dna Binding
pdb|3DFX|B Chain B, Opposite Gata Dna Binding
Length = 63
Score = 32.0 bits (71), Expect = 0.68, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNACGSRWR 37
C +C T+T LWR PV CNACG ++
Sbjct: 10 CANCQTTTTTLWRRNANGDPV-CNACGLYYK 39
>pdb|2KAE|A Chain A, Data-Driven Model Of Med1:dna Complex
Length = 71
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 7 CYHCGVTSTPLWRNGPPEKPVLCNAC 32
C +C VT T WRN ++ + CNAC
Sbjct: 11 CSNCSVTETIRWRNIRSKEGIQCNAC 36
>pdb|2EOW|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
368- 400) Of Human Zinc Finger Protein 347
Length = 46
Score = 29.6 bits (65), Expect = 3.1, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEP 54
EKP CN CG +R + +LA + H+ +P
Sbjct: 10 EKPYKCNECGKAFRARSSLAIHQATHSGEKP 40
>pdb|2ELR|A Chain A, Solution Structure Of The 15th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 29.6 bits (65), Expect = 3.3, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 20 NGPPEKPVLCNACGSRWRTKGTLANYTPLH 49
+G K LC+ CG ++++KGTL ++ LH
Sbjct: 3 SGSSGKTHLCDMCGKKFKSKGTLKSHKLLH 32
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.3 bits (64), Expect = 4.1, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEP 54
EKP CN CG+++ L +T +H+ +P
Sbjct: 43 EKPYRCNICGAQFNRPANLKTHTRIHSGEKP 73
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEP 54
+KP C+ C + +R KG LA++ +H +P
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKTVHTGEKP 45
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEPDD 56
EKP C CG + +G+LA + LH + P
Sbjct: 8 EKPYQCKECGKSFSQRGSLAVHERLHTGSGPSS 40
>pdb|2YRH|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(699- 729) From Zinc Finger Protein 473
Length = 44
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEPDD 56
+KP++CN CG +R L+ + +H+ +P
Sbjct: 8 KKPLVCNECGKTFRQSSCLSKHQRIHSGEKPSG 40
>pdb|2EOS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
626- 654) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEP 54
EKP C CG+R+R TL ++ +H + P
Sbjct: 9 EKPYPCEICGTRFRHLQTLKSHLRIHTGSGP 39
>pdb|2EOE|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
508- 540) Of Human Zinc Finger Protein 347
Length = 46
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 24 EKPVLCNACGSRWRTKGTLANYTPLHARAEPD 55
EKP CN CG + LAN+ +H +P
Sbjct: 10 EKPYKCNECGKVFTQNSHLANHQRIHTGVKPS 41
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
0.315 0.132 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,476,589
Number of Sequences: 62578
Number of extensions: 467283
Number of successful extensions: 894
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 856
Number of HSP's gapped (non-prelim): 40
length of query: 442
length of database: 14,973,337
effective HSP length: 102
effective length of query: 340
effective length of database: 8,590,381
effective search space: 2920729540
effective search space used: 2920729540
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)