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= 038569
(362 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3K2A|A Chain A, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
pdb|3K2A|B Chain B, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
Length = 67
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 24/51 (47%), Positives = 29/51 (56%)
Query: 292 ARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWKP 342
A I W H PYP+E K LA+ TGL Q+NNWFIN R+R +P
Sbjct: 9 ATNIXRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQP 59
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 47.8 bits (112), Expect = 9e-06, Method: Composition-based stats.
Identities = 21/47 (44%), Positives = 27/47 (57%)
Query: 292 ARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
A ++ W H PYPTE +K +A T L Q+NNWFIN R+R
Sbjct: 18 ATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRR 64
>pdb|2DMN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Tgif2lx
Length = 83
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 30/48 (62%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
E+ +IL DW H YP+E +K L+E T L QI+NWFIN R+R
Sbjct: 17 ESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRR 64
>pdb|2LK2|A Chain A, Solution Nmr Structure Of Homeobox Domain (171-248) Of
Human Homeobox Protein Tgif1, Northeast Structural
Genomics Consortium Target Hr4411b
Length = 89
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 29/48 (60%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
E+ QIL DW H YP+E +K L++ T L Q+ NWFIN R+R
Sbjct: 15 ESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRR 62
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 33/48 (68%), Gaps = 3/48 (6%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
++R +L +W+ + PYP+ +K LAE+TGL Q++NWF N+R+R
Sbjct: 504 KSRGVLREWYAHN---PYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 34/51 (66%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
+A +IL +++ H + PYP+E K LA+ +G+ Q++NWF N+R R+ K
Sbjct: 12 QATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYKK 62
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 33/51 (64%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
+A +IL +++ H + PYP+E K LA+ G+ Q++NWF N+R R+ K
Sbjct: 11 QATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 33/51 (64%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
+A +IL +++ H + PYP+E K LA+ G+ Q++NWF N+R R+ K
Sbjct: 11 QATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
>pdb|1B8I|B Chain B, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
pdb|2R5Y|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 63
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 32/51 (62%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
+A +IL +++ H + PYP+E K LA G+ Q++NWF N+R R+ K
Sbjct: 11 QASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYKK 61
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 33/51 (64%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
+A +IL +++ H + PYP+E K LA+ G+ Q++NWF N+R R+ K
Sbjct: 13 QATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 35.4 bits (80), Expect = 0.046, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 308 YPTEADKVALAESTGLDQRQINNWFINQRKRHWKPS 343
Y + D++ LAES GL Q Q+ W+ N+R + WK S
Sbjct: 41 YLSTPDRIDLAESLGLSQLQVKTWYQNRRMK-WKKS 75
>pdb|1AHD|P Chain P, Determination Of The Nmr Solution Structure Of An
Antennapedia Homeodomain-Dna Complex
pdb|2HOA|A Chain A, Structure Determination Of The Antp(C39->s) Homeodomain
From Nuclear Magnetic Resonance Data In Solution Using A
Novel Strategy For The Structure Calculation With The
Programs Diana, Caliba, Habas And Glomsa
Length = 68
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 302 LHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
H+N Y T ++ +A + L +RQI WF N+R + WK
Sbjct: 21 FHFN-RYLTRRRRIEIAHALSLTERQIKIWFQNRRMK-WK 58
>pdb|1SAN|A Chain A, The Des(1-6)antennapedia Homeodomain: Comparison Of The
Nmr Solution Structure And The Dna Binding Affinity With
The Intact Antennapedia Homeodomain
Length = 62
Score = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 302 LHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
H+N Y T ++ +A + L +RQI WF N+R + WK
Sbjct: 15 FHFN-RYLTRRRRIEIAHALSLTERQIKIWFQNRRMK-WK 52
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 302 LHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
H+N Y T ++ +A + L +RQI WF N+R + WK
Sbjct: 22 FHFN-RYLTRRRRIEIAHALSLTERQIKIWFQNRRMK-WK 59
>pdb|2R5Y|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 88
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 302 LHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
H+N Y T ++ +A + L +RQI WF N+R + WK
Sbjct: 47 FHFN-RYLTRRRRIEIAHALSLTERQIKIWFQNRRMK-WK 84
>pdb|1HOM|A Chain A, Determination Of The Three-Dimensional Structure Of The
Antennapedia Homeodomain From Drosophila In Solution By
1h Nuclear Magnetic Resonance Spectroscopy
Length = 68
Score = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 302 LHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
H+N Y T ++ +A + L +RQI WF N+R + WK
Sbjct: 21 FHFN-RYLTRRRRIEIAHALCLTERQIKIWFQNRRMK-WK 58
>pdb|3NAU|A Chain A, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
pdb|3NAU|B Chain B, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
Length = 66
Score = 29.6 bits (65), Expect = 2.9, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 308 YPTEADKVALAESTGLDQRQINNWFINQRKR 338
+P +A+ L E TGL + +I WF + R R
Sbjct: 28 FPDDAEVYRLIEVTGLARSEIKKWFSDHRYR 58
>pdb|1BW5|A Chain A, The Nmr Solution Structure Of The Homeodomain Of The Rat
Insulin Gene Enhancer Protein Isl-1, 50 Structures
Length = 66
Score = 29.3 bits (64), Expect = 3.5, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 18/37 (48%)
Query: 307 PYPTEADKVALAESTGLDQRQINNWFINQRKRHWKPS 343
P P K L E TGL R I WF N+R + K S
Sbjct: 26 PRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRS 62
>pdb|1FTZ|A Chain A, Nuclear Magnetic Resonance Solution Structure Of The Fushi
Tarazu Homeodomain From Drosophila And Comparison With
The Antennapedia Homeodomain
Length = 70
Score = 28.5 bits (62), Expect = 6.2, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 302 LHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKRHWK 341
H+N Y T ++ +A + L +RQI WF N+R + K
Sbjct: 22 FHFN-RYITRRRRIDIANALSLSERQIKIWFQNRRMKSKK 60
>pdb|2DMP|A Chain A, Solution Structure Of The Third Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 2
Length = 89
Score = 28.5 bits (62), Expect = 6.3, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 308 YPTEADKVALAESTGLDQRQINNWFINQRK 337
+PT+A+ L T L +R+I++WF +RK
Sbjct: 37 FPTQAELDRLRVETKLSRREIDSWFSERRK 66
>pdb|1APL|C Chain C, Crystal Structure Of A Mat-Alpha2 Homeodomain-Operator
Complex Suggests A General Model For Homeodomain-Dna
Interactions
pdb|1APL|D Chain D, Crystal Structure Of A Mat-Alpha2 Homeodomain-Operator
Complex Suggests A General Model For Homeodomain-Dna
Interactions
pdb|1YRN|B Chain B, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1AKH|B Chain B, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 83
Score = 28.1 bits (61), Expect = 8.4, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
E +IL W+ + PY L ++T L + QI NW N+R++
Sbjct: 12 ENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRK 59
>pdb|1DU0|A Chain A, Engrailed Homeodomain Q50a Variant Dna Complex
pdb|1DU0|B Chain B, Engrailed Homeodomain Q50a Variant Dna Complex
Length = 57
Score = 28.1 bits (61), Expect = 8.7, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 308 YPTEADKVALAESTGLDQRQINNWFINQRKR 338
Y TE + L+ GL++ QI WF N+R +
Sbjct: 23 YLTERRRQQLSSELGLNEAQIKIWFANKRAK 53
>pdb|3NAR|A Chain A, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
pdb|3NAR|B Chain B, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
Length = 96
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 306 WPYPTEADKVALAESTGLDQRQINNWFINQR 336
WP P E DK LA+ +GL + I +WF + R
Sbjct: 49 WPSPEEYDK--LAKESGLARTDIVSWFGDTR 77
>pdb|1K61|A Chain A, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|B Chain B, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|C Chain C, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|D Chain D, Matalpha2 Homeodomain Bound To Dna
Length = 60
Score = 27.7 bits (60), Expect = 9.3, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
E +IL W+ + PY L ++T L + QI NW N+R++
Sbjct: 8 ENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRK 55
>pdb|1MNM|C Chain C, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX
Crystal Structure
pdb|1MNM|D Chain D, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX
Crystal Structure
Length = 87
Score = 27.7 bits (60), Expect = 9.6, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 291 EARQILFDWWNLHYNWPYPTEADKVALAESTGLDQRQINNWFINQRKR 338
E +IL W+ + PY L ++T L + QI NW N+R++
Sbjct: 37 ENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRK 84
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
0.314 0.130 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,605,472
Number of Sequences: 62578
Number of extensions: 347035
Number of successful extensions: 631
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 610
Number of HSP's gapped (non-prelim): 41
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)