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= psy9606
(356 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GAT|A Chain A, Solution Structure Of The Specific Dna Complex Of The Zinc
Containing Dna Binding Domain Of The Erythroid
Transcription Factor Gata-1 By Multidimensional Nmr
pdb|1GAU|A Chain A, Solution Structure Of The Specific Dna Complex Of The Zinc
Containing Dna Binding Domain Of The Erythroid
Transcription Factor Gata-1 By Multidimensional Nmr
Length = 60
Score = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 33/57 (57%), Positives = 41/57 (71%)
Query: 70 KRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRR 126
KRA C+NC T TT+WRR P G+ VCNACGLYY+LH RP++MR+D I R R+
Sbjct: 1 KRAGTVCSNCQTSTTTLWRRSPMGDPVCNACGLYYKLHQVNRPLTMRKDGIQTRNRK 57
>pdb|3GAT|A Chain A, Solution Nmr Structure Of The C-Terminal Domain Of Chicken
Gata-1 Bound To Dna, 34 Structures
pdb|2GAT|A Chain A, Solution Structure Of The C-Terminal Domain Of Chicken
Gata- 1 Bound To Dna, Nmr, Regularized Mean Structure
Length = 66
Score = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 33/57 (57%), Positives = 41/57 (71%)
Query: 70 KRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRR 126
KRA C+NC T TT+WRR P G+ VCNACGLYY+LH RP++MR+D I R R+
Sbjct: 1 KRAGTVCSNCQTSTTTLWRRSPMGDPVCNACGLYYKLHQVNRPLTMRKDGIQTRNRK 57
>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 = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 29/57 (50%), Positives = 41/57 (71%)
Query: 70 KRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRR 126
+RA +C NC T TT+WRR +G+ VCNACGLYY+LH RP++M+++ I R R+
Sbjct: 4 RRAGTSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRPLTMKKEGIQTRNRK 60
>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 = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 29/57 (50%), Positives = 41/57 (71%)
Query: 70 KRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRR 126
+RA +C NC T TT+WRR +G+ VCNACGLYY+LH RP++M+++ I R R+
Sbjct: 56 RRAGTSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRPLTMKKEGIQTRNRK 112
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 34/57 (59%), Gaps = 7/57 (12%)
Query: 76 CTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPKNAKR 132
C NC T +WRR +G +CNACGLY++++ + RP+ I P KRR A+R
Sbjct: 8 CVNCGATSTPLWRRDGTGHYLCNACGLYHKMNGQNRPL------IKP-KRRLSAARR 57
>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 = 64.3 bits (155), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 38/56 (67%)
Query: 75 TCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPKNA 130
TCTNC T+ T +WRR P G+ +CNACGL+ +LH RP+S++ D I R R N+
Sbjct: 11 TCTNCFTQTTPVWRRNPEGQPLCNACGLFLKLHGVVRPLSLKTDVIKKRNRNSANS 66
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 38/56 (67%)
Query: 75 TCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPKNA 130
TCTNC T+ T +WRR P G+ +CNACGL+ +LH RP+S++ D I R R N+
Sbjct: 11 TCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSLKTDVIKKRNRNSANS 66
>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 = 58.2 bits (139), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 35/73 (47%), Positives = 48/73 (65%)
Query: 64 EQQIIPKRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPR 123
++ I+ KRA CTNC T TT+WRR SG+ VCNACGLY++LH RP++MR+D I R
Sbjct: 47 KRMIVSKRAGTQCTNCQTTTTTLWRRNASGDPVCNACGLYFKLHQVNRPLTMRKDGIQTR 106
Query: 124 KRRPKNAKRELSG 136
R+ ++ G
Sbjct: 107 NRKASGKGKKKRG 119
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 6/50 (12%)
Query: 76 CTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKR 125
C NC T +WRR +G +CNACGLY++++ + RP+ I P+KR
Sbjct: 5 CVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRPL------IRPKKR 48
>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 = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 23/41 (56%), Positives = 31/41 (75%)
Query: 75 TCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSM 115
TCTNC T+ T +WRR P G+ +CNACGL+ +LH RP+S+
Sbjct: 3 TCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSL 43
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of Murine
Gata-1, Nmr, 25 Structures
Length = 46
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 26/38 (68%)
Query: 76 CTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPV 113
C NC T +WRR +G +CNACGLY++++ + RP+
Sbjct: 7 CVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRPL 44
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 26/38 (68%)
Query: 76 CTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPV 113
C NC T +WRR +G +CNACGLY++++ + RP+
Sbjct: 7 CVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRPL 44
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 76 CTNCNTKVTTIWRRYPSGEMVCNACGLYYRL 106
C NC T +WRR +G +CNACGLY+++
Sbjct: 5 CVNCGATATPLWRRDRTGHYLCNACGLYHKM 35
>pdb|2KAE|A Chain A, Data-Driven Model Of Med1:dna Complex
Length = 71
Score = 36.2 bits (82), Expect = 0.028, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 71 RADLTCTNCNTKVTTIWRRYPSGEMV-CNACGLYYRLHCRPRPVS 114
+ C+NC+ T WR S E + CNAC +Y R + + RPV+
Sbjct: 6 KKSFQCSNCSVTETIRWRNIRSKEGIQCNACFIYQRKYNKTRPVT 50
>pdb|3K7A|M Chain M, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|4BBR|M Chain M, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|M Chain M, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 345
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 74 LTCTNCNTKVTTIWRRYPSGEMVCNACGL 102
LTC C I R+ G++VC CGL
Sbjct: 22 LTCPECKVYPPKIVERFSEGDVVCALCGL 50
>pdb|3K1F|M Chain M, Crystal Structure Of Rna Polymerase Ii In Complex With
Tfiib
Length = 197
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 74 LTCTNCNTKVTTIWRRYPSGEMVCNACGL 102
LTC C I R+ G++VC CGL
Sbjct: 22 LTCPECKVYPPKIVERFSEGDVVCALCGL 50
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
0.313 0.130 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,652,053
Number of Sequences: 62578
Number of extensions: 275733
Number of successful extensions: 277
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 261
Number of HSP's gapped (non-prelim): 16
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)