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= 023560
(280 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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/51 (47%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 193 NGSQNQDIVCRHCGISEKSTPMMRRGPEGPRTLCNACGLMWANKGTLRDLS 243
NG QN C +C ++TP+ RR PEG + LCNACGL G +R LS
Sbjct: 3 NGEQNGPTTCTNC--FTQTTPLWRRNPEG-QPLCNACGLFLKLHGVVRPLS 50
>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 = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/51 (47%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 193 NGSQNQDIVCRHCGISEKSTPMMRRGPEGPRTLCNACGLMWANKGTLRDLS 243
NG QN C +C ++TP+ RR PEG + LCNACGL G +R LS
Sbjct: 3 NGEQNGPTTCTNC--FTQTTPVWRRNPEG-QPLCNACGLFLKLHGVVRPLS 50
>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 = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 202 CRHCGISEKSTPMMRRGPEGPRTLCNACGLMWANKGTLRDLS 243
C +C ++TP+ RR PEG + LCNACGL G +R LS
Sbjct: 4 CTNC--FTQTTPLWRRNPEG-QPLCNACGLFLKLHGVVRPLS 42
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of Murine
Gata-1, Nmr, 25 Structures
Length = 46
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 202 CRHCGISEKSTPMMRRGPEGPRTLCNACGLMWANKGTLRDL 242
C +CG + +TP+ RR G LCNACGL G R L
Sbjct: 7 CVNCGAT--ATPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 44
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 202 CRHCGISEKSTPMMRRGPEGPRTLCNACGLMWANKGTLRDL 242
C +CG + +TP+ RR G LCNACGL G R L
Sbjct: 7 CVNCGAT--ATPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 44
>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 = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 33/69 (47%), Gaps = 10/69 (14%)
Query: 202 CRHCGISEKSTPMMRRGPEGPRTLCNACGLMWANKGTLRDLSK------AAPQAGQTSSL 255
C +CG + STP+ RR G LCNACGL G R L K AA +AG TS
Sbjct: 8 CVNCGAT--STPLWRRDGTG-HYLCNACGLYHKMNGQNRPLIKPKRRLSAARRAG-TSCA 63
Query: 256 NKNEENGTL 264
N TL
Sbjct: 64 NCQTTTTTL 72
>pdb|3MCA|A Chain A, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 592
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%)
Query: 81 SFQGQVYVFDSVSPEKVQAVLLLLGGREVPSTTPAIPIANNQNNRRLAS 129
SF ++ FD P + L+L GR V S + I NN+ +R +AS
Sbjct: 497 SFVAEIQTFDIHGPILSGSTLVLHLGRTVTSVSLKIVTVNNKRSRHIAS 545
>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 = 28.5 bits (62), Expect = 4.0, Method: Composition-based stats.
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 3/30 (10%)
Query: 202 CRHCGISEKSTPMMRRGPEGPRTLCNACGL 231
C +CG + +TP+ RR G LCNACGL
Sbjct: 5 CVNCGAT--ATPLWRRDRTG-HYLCNACGL 31
>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 = 28.5 bits (62), Expect = 4.7, Method: Composition-based stats.
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 201 VCRHCGISEKSTPMMRRGPEGPRTLCNACGLMW 233
VC +C S +T + RR P G +CNACGL +
Sbjct: 6 VCSNCQTS--TTTLWRRSPMGD-PVCNACGLYY 35
>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 = 28.5 bits (62), Expect = 4.8, Method: Composition-based stats.
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 201 VCRHCGISEKSTPMMRRGPEGPRTLCNACGLMW 233
VC +C S +T + RR P G +CNACGL +
Sbjct: 6 VCSNCQTS--TTTLWRRSPMGD-PVCNACGLYY 35
>pdb|2R8A|A Chain A, Crystal Structure Of The Long-Chain Fatty Acid
Transporter Fadl Mutant Delta N8
pdb|2R8A|B Chain B, Crystal Structure Of The Long-Chain Fatty Acid
Transporter Fadl Mutant Delta N8
Length = 419
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 45 GNGVGESEAMEGDAPSDPGSLSDNRAVSEIGDQLTLSFQGQVYV 88
G+G+G + + EG D G++S N A+ + D+ T S G VY+
Sbjct: 2 GSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFS-AGAVYI 44
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
0.309 0.126 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,479,289
Number of Sequences: 62578
Number of extensions: 337160
Number of successful extensions: 558
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 553
Number of HSP's gapped (non-prelim): 15
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (24.3 bits)