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= 030971
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGI 38
CT+C T TPLWR P G + LCNACG+
Sbjct: 12 CTNCFTQTTPLWRRNPEG-QPLCNACGL 38
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGI 38
CT+C T TPLWR P G + LCNACG+
Sbjct: 4 CTNCFTQTTPLWRRNPEG-QPLCNACGL 30
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGI 38
CT+C T TP+WR P G + LCNACG+
Sbjct: 12 CTNCFTQTTPVWRRNPEG-QPLCNACGL 38
>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 = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGIRFR 41
C++C+T+ T LWR P G +CNACG+ ++
Sbjct: 7 CSNCQTSTTTLWRRSPMG-DPVCNACGLYYK 36
>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 = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGIRFR 41
C++C+T+ T LWR P G +CNACG+ ++
Sbjct: 7 CSNCQTSTTTLWRRSPMG-DPVCNACGLYYK 36
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of
Murine Gata-1, Nmr, 25 Structures
Length = 46
Score = 33.1 bits (74), Expect = 0.071, Method: Composition-based stats.
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 6 SNLKYCTDCKTTKTPLWRGGPAGPKSLCNACGI 38
S + C +C T TPLWR G LCNACG+
Sbjct: 2 SEARECVNCGATATPLWRRDRTG-HYLCNACGL 33
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 33.1 bits (74), Expect = 0.072, Method: Composition-based stats.
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 6 SNLKYCTDCKTTKTPLWRGGPAGPKSLCNACGI 38
S + C +C T TPLWR G LCNACG+
Sbjct: 2 SEARECVNCGATATPLWRRDRTG-HYLCNACGL 33
>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 = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGIRFR 41
C +C+TT T LWR G +CNACG+ ++
Sbjct: 10 CANCQTTTTTLWRRNANG-DPVCNACGLYYK 39
>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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 9 KYCTDCKTTKTPLWRGGPAGPKSLCNACGI 38
+ C +C T TPLWR G LCNACG+
Sbjct: 3 RECVNCGATATPLWRRDRTG-HYLCNACGL 31
>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 = 32.0 bits (71), Expect = 0.16, Method: Composition-based stats.
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 9 KYCTDCKTTKTPLWRGGPAGPKSLCNACGI 38
+ C +C T TPLWR G LCNACG+
Sbjct: 3 RECVNCGATATPLWRRDRTG-HYLCNACGL 31
>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 = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGIRFR 41
C +C+TT T LWR G +CNACG+ ++
Sbjct: 62 CANCQTTTTTLWRRNANG-DPVCNACGLYYK 91
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 9 KYCTDCKTTKTPLWRGGPAGPKSLCNACGIRFR 41
+ C +C T TPLWR G LCNACG+ +
Sbjct: 6 RECVNCGATSTPLWRRDGTG-HYLCNACGLYHK 37
>pdb|2KAE|A Chain A, Data-Driven Model Of Med1:dna Complex
Length = 71
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 11 CTDCKTTKTPLWRGGPAGPKSLCNACGIRFRK 42
C++C T+T WR + CNAC I RK
Sbjct: 11 CSNCSVTETIRWRNIRSKEGIQCNACFIYQRK 42
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 0.139 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,760,382
Number of Sequences: 62578
Number of extensions: 59912
Number of successful extensions: 179
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 155
Number of HSP's gapped (non-prelim): 14
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)