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= 018641
(352 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.8 bits (81), Expect = 0.035, Method: Composition-based stats.
Identities = 23/51 (45%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 223 RRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDLSKGGRSLS 273
R C +CG + +TP RR G LCNACGL G R L K R LS
Sbjct: 6 RECVNCGAT--STPLWRRDGTG-HYLCNACGLYHKMNGQNRPLIKPKRRLS 53
>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 = 32.7 bits (73), Expect = 0.32, Method: Composition-based stats.
Identities = 19/42 (45%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 225 CQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDLS 266
C +C TP RR P G + LCNACGL G +R LS
Sbjct: 4 CTNCFT--QTTPLWRRNPEG-QPLCNACGLFLKLHGVVRPLS 42
>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 = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 30/59 (50%), Gaps = 10/59 (16%)
Query: 208 QDGIQDGTPRPETVVRRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDLS 266
++G Q+G P T C +C TP RR P G + LCNACGL G +R LS
Sbjct: 2 KNGEQNG---PTT----CTNCFTQT--TPVWRRNPEG-QPLCNACGLFLKLHGVVRPLS 50
>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 = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 30/59 (50%), Gaps = 10/59 (16%)
Query: 208 QDGIQDGTPRPETVVRRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDLS 266
++G Q+G P T C +C TP RR P G + LCNACGL G +R LS
Sbjct: 2 KNGEQNG---PTT----CTNCFTQT--TPLWRRNPEG-QPLCNACGLFLKLHGVVRPLS 50
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of Murine
Gata-1, Nmr, 25 Structures
Length = 46
Score = 31.2 bits (69), Expect = 0.82, Method: Composition-based stats.
Identities = 19/43 (44%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 223 RRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDL 265
R C +CG + TP RR G LCNACGL G R L
Sbjct: 5 RECVNCGATA--TPLWRRDRTG-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 = 31.2 bits (69), Expect = 0.93, Method: Composition-based stats.
Identities = 19/43 (44%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 223 RRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDL 265
R C +CG + TP RR G LCNACGL G R L
Sbjct: 5 RECVNCGATA--TPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 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 = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 223 RRCQHCGVSENNTPAMRRGPAGPRTLCNACGL 254
R C +CG + TP RR G LCNACGL
Sbjct: 3 RECVNCGATA--TPLWRRDRTG-HYLCNACGL 31
>pdb|1X3W|A Chain A, Structure Of A Peptide:n-Glycanase-Rad23 Complex
Length = 335
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 18/41 (43%), Gaps = 12/41 (29%)
Query: 225 CQHCG--VSENNTPAMRRGPAGPRT----------LCNACG 253
C HCG SEN TP +GP G + CN CG
Sbjct: 122 CNHCGQNTSENXTPLGSQGPNGEESKFNCGTVEIYKCNRCG 162
>pdb|2ZKR|OO Chain o, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 188
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 249 CNACGLMWANKGTLRDLSKGGRSLSMDQLEPETPMDVKPSIMEGEFSGNQ 298
C L +++ R L GG+ L+ DQL E+P ++ G G +
Sbjct: 98 LKVCALRVSSRARSRILKAGGKILTFDQLALESPKGRGTVLLSGPRKGRE 147
>pdb|3URF|Z Chain Z, Human RanklOPG COMPLEX
Length = 171
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 211 IQDGTPRPETVVRRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKG 260
+Q GTP TV +RC G N T + + P T C+ GL+ KG
Sbjct: 110 VQAGTPERNTVCKRCPD-GFFSNETSS--KAPCRKHTNCSVFGLLLTQKG 156
>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 = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 222 VRRCQHCGVSENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDL 265
R C +CG + TP RR G LCNACGL G R L
Sbjct: 2 ARECVNCGATA--TPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 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
0.316 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,238,101
Number of Sequences: 62578
Number of extensions: 365597
Number of successful extensions: 670
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 18
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)