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= 038021
(675 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 = 71.6 bits (174), Expect = 1e-12, Method: Composition-based stats.
Identities = 30/59 (50%), Positives = 42/59 (71%)
Query: 407 LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLWKPMVEE 465
P+ + +I RAWLF+H HPYP + K LA+ TGLT QV+NWFINAR R+ +P +++
Sbjct: 5 FPKVATNIXRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPXIDQ 63
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 29/56 (51%), Positives = 42/56 (75%), Gaps = 1/56 (1%)
Query: 404 QRG-LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRL 458
+RG LP+ + +++R+WLF+H HPYP + +K +A QT LT QV+NWFINAR R+
Sbjct: 10 KRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRI 65
>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 = 65.5 bits (158), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 407 LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLWKPMVEE 465
LP+ SV ILR WL+EH + YP + +K +L++QT L+ QV NWFINAR RL M+ +
Sbjct: 12 LPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRK 70
>pdb|2DMN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Tgif2lx
Length = 83
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 27/59 (45%), Positives = 40/59 (67%)
Query: 407 LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLWKPMVEE 465
LP SV ILR W+++H YP + +K ML+ +T L+ Q+SNWFINAR R+ M+++
Sbjct: 14 LPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQQ 72
>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 = 53.1 bits (126), Expect = 5e-07, Method: Composition-based stats.
Identities = 26/61 (42%), Positives = 36/61 (59%)
Query: 400 AWRPQRGLPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLW 459
A R +R + + IL + + H +PYP + K LAR+ G+T SQVSNWF N R+R
Sbjct: 1 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYK 60
Query: 460 K 460
K
Sbjct: 61 K 61
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 53.1 bits (126), Expect = 5e-07, Method: Composition-based stats.
Identities = 25/61 (40%), Positives = 37/61 (60%)
Query: 400 AWRPQRGLPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLW 459
A R +R + + IL + + H +PYP + K LA+++G+T SQVSNWF N R+R
Sbjct: 2 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYK 61
Query: 460 K 460
K
Sbjct: 62 K 62
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 52.8 bits (125), Expect = 6e-07, Method: Composition-based stats.
Identities = 25/61 (40%), Positives = 36/61 (59%)
Query: 400 AWRPQRGLPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLW 459
A R +R + + IL + + H +PYP + K LA++ G+T SQVSNWF N R+R
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 460 K 460
K
Sbjct: 61 K 61
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 52.4 bits (124), Expect = 7e-07, Method: Composition-based stats.
Identities = 25/61 (40%), Positives = 36/61 (59%)
Query: 400 AWRPQRGLPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLW 459
A R +R + + IL + + H +PYP + K LA++ G+T SQVSNWF N R+R
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 460 K 460
K
Sbjct: 61 K 61
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 49.3 bits (116), Expect = 7e-06, Method: Composition-based stats.
Identities = 23/56 (41%), Positives = 34/56 (60%)
Query: 405 RGLPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVRLWK 460
R + + + IL + + H +PYP + K LA++ G+T SQVSNWF N R+R K
Sbjct: 8 RHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/49 (51%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 409 ESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVR 457
E S +LR W + H +PYP +K LA TGLT +QVSNWF N R R
Sbjct: 503 EKSRGVLREW-YAH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>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 = 34.3 bits (77), Expect = 0.21, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 402 RPQRG--LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINAR 455
+P RG + +V IL +W ++ +PY L + T L+R Q+ NW N R
Sbjct: 2 KPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRR 57
>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 = 34.3 bits (77), Expect = 0.22, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 396 MQQHAWRPQRG--LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFIN 453
M + +P RG + +V IL +W ++ +PY L + T L+R Q+ NW N
Sbjct: 21 MINKSTKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSN 80
Query: 454 AR 455
R
Sbjct: 81 RR 82
>pdb|1LE8|B Chain B, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 83
Score = 33.1 bits (74), Expect = 0.57, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 402 RPQRG--LPESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINARVR 457
+P RG + +V IL +W ++ +PY L + T L+R Q+ NW R +
Sbjct: 2 KPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAK 59
>pdb|3A01|A Chain A, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|E Chain E, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 93
Score = 32.3 bits (72), Expect = 0.86, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 2/82 (2%)
Query: 393 LGMMQQHAWRPQRGLPESSVSILRAWLFEHFLHP--YPKDTDKIMLARQTGLTRSQVSNW 450
+G Q+ P+R P +S + ++ E H Y ++ LAR +T +QV W
Sbjct: 5 IGHPYQNRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTW 64
Query: 451 FINARVRLWKPMVEEMYKEEFA 472
F N R + + EE E A
Sbjct: 65 FQNRRTKWRRQTAEEREAERQA 86
>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 = 32.3 bits (72), Expect = 0.99, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 409 ESSVSILRAWLFEHFLHPYPKDTDKIMLARQTGLTRSQVSNWFINAR 455
+ +V IL +W ++ +PY L + T L+R Q+ NW N R
Sbjct: 7 KENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRR 53
>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 = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 427 YPKDTDKIMLARQTGLTRSQVSNWFINARVRLWKPMV 463
+P D + L TGL RS++ WF + R R + +V
Sbjct: 28 FPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRGIV 64
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 428 PKDTDKIMLARQTGLTRSQVSNWFINARVRLWKPMVEE 465
P D LA++TGLT+ + WF NAR + + ++ +
Sbjct: 32 PDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLLRQ 69
>pdb|2LY9|A Chain A, Solution Nmr Structure Of Homeobox 2 Domain From Human
Zhx1 Repressor, Northeast Structural Genomics Consortium
(Nesg) Target Hr7907f
Length = 74
Score = 30.4 bits (67), Expect = 3.0, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 427 YPKDTDKIMLARQTGLTRSQVSNWFINAR 455
+P D++ I L + TGLT+ ++ WF + R
Sbjct: 30 FPHDSEIIRLMKITGLTKGEIKKWFSDTR 58
>pdb|1FJL|A Chain A, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|B Chain B, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|C Chain C, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
Length = 81
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 427 YPKDTDKIMLARQTGLTRSQVSNWFINARVRLWK 460
YP + LA++T LT +++ WF N R RL K
Sbjct: 42 YPDIYTREELAQRTNLTEARIQVWFQNRRARLRK 75
>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 = 28.9 bits (63), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 3/35 (8%)
Query: 426 PYPKDTDKIMLARQTGLTRSQVSNWFINARVRLWK 460
P P++ DK LA+++GL R+ + +WF + R WK
Sbjct: 50 PSPEEYDK--LAKESGLARTDIVSWFGDTRYA-WK 81
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
0.313 0.127 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,103,391
Number of Sequences: 62578
Number of extensions: 756878
Number of successful extensions: 1102
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1084
Number of HSP's gapped (non-prelim): 24
length of query: 675
length of database: 14,973,337
effective HSP length: 105
effective length of query: 570
effective length of database: 8,402,647
effective search space: 4789508790
effective search space used: 4789508790
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)