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= psy8831
(88 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 = 66.2 bits (160), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 30/49 (61%), Positives = 35/49 (71%)
Query: 8 REQTGNKRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
R + +R+G SCANC TT TTLWRRN NG+PVCNACGL +IN P
Sbjct: 50 RRLSAARRAGTSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRP 98
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 21/40 (52%)
Query: 17 GVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
G C NC T T LWRR+ G +CNACGL N P
Sbjct: 5 GRECVNCGATSTPLWRRDGTGHYLCNACGLYHKMNGQNRP 44
>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 = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 29/43 (67%), Positives = 33/43 (76%)
Query: 14 KRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
+R+G SCANC TT TTLWRRN NG+PVCNACGL +IN P
Sbjct: 4 RRAGTSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRP 46
>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 = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 30/43 (69%)
Query: 14 KRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
KR+G C+NC T+ TTLWRR+ G+PVCNACGL +N P
Sbjct: 1 KRAGTVCSNCQTSTTTLWRRSPMGDPVCNACGLYYKLHQVNRP 43
>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 = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 30/43 (69%)
Query: 14 KRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
KR+G C+NC T+ TTLWRR+ G+PVCNACGL +N P
Sbjct: 1 KRAGTVCSNCQTSTTTLWRRSPMGDPVCNACGLYYKLHQVNRP 43
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%)
Query: 10 QTGNKRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAPEKIMPPIESMISR 69
+ G + +C NC T T LWRRN G+P+CNACGL + + P + + +R
Sbjct: 2 KNGEQNGPTTCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSLKTDVIKKRNR 61
Query: 70 N 70
N
Sbjct: 62 N 62
>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 = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 32/61 (52%)
Query: 10 QTGNKRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAPEKIMPPIESMISR 69
+ G + +C NC T T +WRRN G+P+CNACGL + + P + + +R
Sbjct: 2 KNGEQNGPTTCTNCFTQTTPVWRRNPEGQPLCNACGLFLKLHGVVRPLSLKTDVIKKRNR 61
Query: 70 N 70
N
Sbjct: 62 N 62
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%)
Query: 19 SCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAPEKI 59
+C NC T T LWRRN G+P+CNACGL + + P +
Sbjct: 3 TCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSL 43
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 19 SCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAPEKIMPPIESMI 67
C NC T T LWRR+ G +CNACGL N P ++ P + MI
Sbjct: 4 ECVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRP--LIRPKKRMI 50
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/43 (60%), Positives = 30/43 (69%)
Query: 14 KRSGVSCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
KR+G C NC TT TTLWRRN +G+PVCNACGL +N P
Sbjct: 53 KRAGTQCTNCQTTTTTLWRRNASGDPVCNACGLYFKLHQVNRP 95
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 20/38 (52%)
Query: 19 SCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
C NC T T LWRR+ G +CNACGL N P
Sbjct: 6 ECVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRP 43
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of
Murine Gata-1, Nmr, 25 Structures
Length = 46
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 20/38 (52%)
Query: 19 SCANCSTTCTTLWRRNNNGEPVCNACGLIMNTVDINAP 56
C NC T T LWRR+ G +CNACGL N P
Sbjct: 6 ECVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRP 43
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/29 (55%), Positives = 18/29 (62%)
Query: 19 SCANCSTTCTTLWRRNNNGEPVCNACGLI 47
C NC T T LWRR+ G +CNACGL
Sbjct: 4 ECVNCGATATPLWRRDRTGHYLCNACGLY 32
>pdb|2EJ8|A Chain A, Crystal Structure Of Appl1 Ptb Domain At 1.8a
pdb|2EJ8|B Chain B, Crystal Structure Of Appl1 Ptb Domain At 1.8a
Length = 160
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 16 SGVSCANCSTTCTTLWRRNNNGEPVCNACGL-----IMNTVDINAPEK 58
SG S +N S+ C ++ NN GE +C++ GL + +D A EK
Sbjct: 108 SGRSESNLSSVCY-IFESNNEGEKICDSVGLAKQIALHAELDRRASEK 154
>pdb|3LIC|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Sohk1s-Z6
Length = 274
Score = 29.6 bits (65), Expect = 0.42, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 36 NGEPVCNACGLIMNTVDINAPEKIMPPIESMISRNGDAL-SVITSTPN 82
N + + + GL+ + DIN PEK+ + + I RN D S I PN
Sbjct: 35 NTQGLSDFIGLLADKDDINNPEKLKTVLTNRIQRNPDFFGSAIAFKPN 82
>pdb|2ELA|A Chain A, Crystal Structure Of The Ptb Domain Of Human Appl1
pdb|2ELA|B Chain B, Crystal Structure Of The Ptb Domain Of Human Appl1
Length = 175
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 16 SGVSCANCSTTCTTLWRRNNNGEPVCNACGL-----IMNTVDINAPEK 58
SG S +N S+ C ++ NN GE +C++ GL + +D A EK
Sbjct: 121 SGRSESNLSSVCY-IFESNNEGEKICDSVGLAKQIALHAELDRRASEK 167
>pdb|2KAE|A Chain A, Data-Driven Model Of Med1:dna Complex
Length = 71
Score = 29.3 bits (64), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 13 NKRSGVSCANCSTTCTTLWRRNNNGEPV-CNACGLIMNTVDINAP 56
NK+S C+NCS T T WR + E + CNAC + + P
Sbjct: 5 NKKS-FQCSNCSVTETIRWRNIRSKEGIQCNACFIYQRKYNKTRP 48
>pdb|1Q90|A Chain A, Structure Of The Cytochrome B6f (Plastohydroquinone :
Plastocyanin Oxidoreductase) From Chlamydomonas
Reinhardtii
Length = 292
Score = 29.3 bits (64), Expect = 0.51, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 33 RNNNGEPVCNACGLIMNTVDINAPEKIMP 61
R NG VC C L V+I P+ ++P
Sbjct: 13 REANGRIVCANCHLAQKAVEIEVPQAVLP 41
>pdb|3EGW|B Chain B, The Crystal Structure Of The Narghi Mutant Narh - C16a
Length = 509
Score = 26.9 bits (58), Expect = 2.9, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 7 IREQTG---NKRSGVSCANCSTTCTTLW 31
IR Q G N + C CS TC +W
Sbjct: 3 IRSQVGMVLNLDKAIGCHTCSVTCKNVW 30
>pdb|2JXM|B Chain B, Ensemble Of Twenty Structures Of The Prochlorothrix
Hollandica Plastocyanin- Cytochrome F Complex
Length = 249
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 33 RNNNGEPVCNACGLIMNTVDINAPEKIMP 61
R G+ VC C L TV+I P+ ++P
Sbjct: 13 REATGKIVCANCHLAKKTVEIEVPQAVLP 41
>pdb|1E2V|A Chain A, N153q Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
pdb|1E2V|B Chain B, N153q Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
pdb|1E2V|C Chain C, N153q Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
Length = 251
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 33 RNNNGEPVCNACGLIMNTVDINAPEKIMP 61
R NG VC C L V+I P+ ++P
Sbjct: 13 REANGRIVCANCHLAQKAVEIEVPQAVLP 41
>pdb|1E2W|A Chain A, N168f Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
pdb|1E2W|B Chain B, N168f Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
Length = 251
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 33 RNNNGEPVCNACGLIMNTVDINAPEKIMP 61
R NG VC C L V+I P+ ++P
Sbjct: 13 REANGRIVCANCHLAQKAVEIEVPQAVLP 41
>pdb|1CFM|A Chain A, Cytochrome F From Chlamydomonas Reinhardtii
pdb|1CFM|B Chain B, Cytochrome F From Chlamydomonas Reinhardtii
pdb|1CFM|C Chain C, Cytochrome F From Chlamydomonas Reinhardtii
pdb|1EWH|A Chain A, Structure Of Cytochrome F From Chlamydomonas Reinhardtii
pdb|1EWH|B Chain B, Structure Of Cytochrome F From Chlamydomonas Reinhardtii
pdb|1EWH|C Chain C, Structure Of Cytochrome F From Chlamydomonas Reinhardtii
Length = 251
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 33 RNNNGEPVCNACGLIMNTVDINAPEKIMP 61
R NG VC C L V+I P+ ++P
Sbjct: 13 REANGRIVCANCHLAQKAVEIEVPQAVLP 41
>pdb|1E2Z|A Chain A, Q158l Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
pdb|1E2Z|B Chain B, Q158l Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
pdb|1E2Z|C Chain C, Q158l Mutant Of Cytochrome F From Chlamydomonas
Reinhardtii
Length = 251
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 33 RNNNGEPVCNACGLIMNTVDINAPEKIMP 61
R NG VC C L V+I P+ ++P
Sbjct: 13 REANGRIVCANCHLAQKAVEIEVPQAVLP 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
0.317 0.131 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,732,918
Number of Sequences: 62578
Number of extensions: 87704
Number of successful extensions: 259
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 235
Number of HSP's gapped (non-prelim): 28
length of query: 88
length of database: 14,973,337
effective HSP length: 56
effective length of query: 32
effective length of database: 11,468,969
effective search space: 367007008
effective search space used: 367007008
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)