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= 005863
(673 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 = 70.9 bits (172), Expect = 2e-12, Method: Composition-based stats.
Identities = 30/59 (50%), Positives = 43/59 (72%)
Query: 415 LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLWKPMIEE 473
P+ + +I RAWLF+H HPYP++ +K LA+ TGL+ QV NWFINAR R+ +P I++
Sbjct: 5 FPKVATNIXRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPXIDQ 63
>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 = 68.9 bits (167), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 32/59 (54%), Positives = 42/59 (71%)
Query: 415 LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLWKPMIEE 473
LP+ SV ILR WL+EH + YP++ EK +L++QT LS QV NWFINAR RL M+ +
Sbjct: 12 LPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRK 70
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 67.4 bits (163), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/56 (51%), Positives = 41/56 (73%), Gaps = 1/56 (1%)
Query: 412 QRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRL 466
+RG LP+ + +++R+WLF+H HPYP + EK +A QT L+ QV NWFINAR R+
Sbjct: 10 KRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRI 65
>pdb|2DMN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Tgif2lx
Length = 83
Score = 65.5 bits (158), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 28/59 (47%), Positives = 42/59 (71%)
Query: 415 LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLWKPMIEE 473
LP SV ILR W+++H YP++ EK ML+++T LS Q++NWFINAR R+ M+++
Sbjct: 14 LPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQQ 72
>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 = 26/79 (32%), Positives = 44/79 (55%), Gaps = 9/79 (11%)
Query: 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLW 467
A R +R + + IL + + H +PYP++ K LAK++G++ +QV+NWF N R+R
Sbjct: 2 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIR-- 59
Query: 468 KPMIEEMYKEEFGDTEENS 486
YK+ G +E +
Sbjct: 60 -------YKKNIGKFQEEA 71
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 52.4 bits (124), Expect = 7e-07, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 9/79 (11%)
Query: 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLW 467
A R +R + + IL + + H +PYP++ K LAK+ G++ +QV+NWF N R+R
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR-- 58
Query: 468 KPMIEEMYKEEFGDTEENS 486
YK+ G +E +
Sbjct: 59 -------YKKNIGKFQEEA 70
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 52.4 bits (124), Expect = 8e-07, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 9/79 (11%)
Query: 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLW 467
A R +R + + IL + + H +PYP++ K LAK+ G++ +QV+NWF N R+R
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR-- 58
Query: 468 KPMIEEMYKEEFGDTEENS 486
YK+ G +E +
Sbjct: 59 -------YKKNIGKFQEEA 70
>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 = 50.1 bits (118), Expect = 4e-06, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 37/61 (60%)
Query: 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLW 467
A R +R + + IL + + H +PYP++ K LA++ G++ +QV+NWF N R+R
Sbjct: 1 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYK 60
Query: 468 K 468
K
Sbjct: 61 K 61
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 413 RGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVRLWK 468
R + + + IL + + H +PYP++ K LAK+ G++ +QV+NWF 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 = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/49 (48%), Positives = 31/49 (63%), Gaps = 3/49 (6%)
Query: 417 ESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVR 465
E S +LR W + H +PYP+ EK LA+ TGL+ QV+NWF N R R
Sbjct: 503 EKSRGVLREW-YAH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>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 = 35.8 bits (81), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 8/56 (14%)
Query: 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINAR 463
A + + L E VS L+ + +P+DSE I L K TGL+K ++ WF + R
Sbjct: 11 AKKTKEQLAELKVSYLK--------NQFPHDSEIIRLMKITGLTKGEIKKWFSDTR 58
>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 = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 410 RPQRG--LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINAR 463
+P RG + +V IL +W ++ +PY + L K T LS+ 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 = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 410 RPQRG--LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINAR 463
+P RG + +V IL +W ++ +PY + L K T LS+ Q+ NW N R
Sbjct: 27 KPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRR 82
>pdb|3C2E|A Chain A, Crystal Structure At 1.9a Of The Apo Quinolinate
Phosphoribosyl Transferase (Bna6) From Saccharomyces
Cerevisiae
pdb|3C2O|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With Quinolinate
pdb|3C2F|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Saccharomyces Cerevisiae
Complexed With Prpp
pdb|3C2V|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Saccharomyces Cerevisiae
Complexed With Prpp And The Inhibitor Phthalate
Length = 294
Score = 34.7 bits (78), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%), Gaps = 2/30 (6%)
Query: 426 WLFEH--FLHPYPNDSEKIMLAKQTGLSKN 453
WLF+ FL P NDS KI++AK TG +KN
Sbjct: 71 WLFKEGSFLEPSKNDSGKIVVAKITGPAKN 100
>pdb|3C2R|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With The Inhibitor Phthalate
pdb|3C2R|B Chain B, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With The Inhibitor Phthalate
Length = 295
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%), Gaps = 2/30 (6%)
Query: 426 WLFEH--FLHPYPNDSEKIMLAKQTGLSKN 453
WLF+ FL P NDS KI++AK TG +KN
Sbjct: 72 WLFKEGSFLEPSKNDSGKIVVAKITGPAKN 101
>pdb|1LE8|B Chain B, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 83
Score = 33.9 bits (76), Expect = 0.27, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 410 RPQRG--LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINARVR 465
+P RG + +V IL +W ++ +PY + L K T LS+ Q+ NW R +
Sbjct: 2 KPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAK 59
>pdb|3RIQ|A Chain A, Siphovirus 9na Tailspike Receptor Binding Domain
Length = 543
Score = 33.9 bits (76), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 554 VLNSGIMRLQNDQRPNINDHRLYASIPHN 582
VL S RL +PN+NDH ++AS+P N
Sbjct: 110 VLASVAQRLDKGYKPNVNDHDIWASLPDN 138
>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 = 32.7 bits (73), Expect = 0.63, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 417 ESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVANWFINAR 463
+ +V IL +W ++ +PY + L K T LS+ 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 = 31.6 bits (70), Expect = 1.4, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 24/37 (64%)
Query: 435 YPNDSEKIMLAKQTGLSKNQVANWFINARVRLWKPMI 471
+P+D+E L + TGL+++++ WF + R R + ++
Sbjct: 28 FPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRGIV 64
>pdb|1MH3|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form I
pdb|1MH4|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form Ii
Length = 421
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 437 NDSEKIMLAKQTGLSKNQVANWFINARVR 465
N EK +AK+ G++ QV WFIN R+R
Sbjct: 391 NSKEKEEVAKKCGITPLQVRVWFINKRMR 419
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 424 RAWLFEHFLHPYP-NDSEKIMLAKQTGLSKNQVANWFINARVR 465
RA+L E F N EK +AK+ G++ QV WFIN R+R
Sbjct: 17 RAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 30.8 bits (68), Expect = 2.7, Method: Composition-based stats.
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 437 NDSEKIMLAKQTGLSKNQVANWFINARVR 465
N EK +AK+ G++ QV WFIN R+R
Sbjct: 23 NSKEKEEVAKKCGITPLQVRVWFINKRMR 51
>pdb|1YRN|A Chain A, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1F43|A Chain A, Solution Structure Of The Mata1 Homeodomain
Length = 61
Score = 30.4 bits (67), Expect = 3.5, Method: Composition-based stats.
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 437 NDSEKIMLAKQTGLSKNQVANWFINARVR 465
N EK +AK+ G++ QV WFIN R+R
Sbjct: 31 NSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 436 PNDSEKIMLAKQTGLSKNQVANWFINARVRLWKPMIEE 473
P+ + LA++TGL+K + WF NAR + + ++ +
Sbjct: 32 PDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLLRQ 69
>pdb|2I76|A Chain A, Crystal Structure Of Protein Tm1727 From Thermotoga
Maritima
pdb|2I76|B Chain B, Crystal Structure Of Protein Tm1727 From Thermotoga
Maritima
Length = 276
Score = 29.6 bits (65), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 315 KQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHFRSLRDAISDQIQ 364
K+ YH ++AS+F + + + + YT+L L +L ++D I+
Sbjct: 157 KKAYHLAAVIASNFPVALAYLSKRIYTLLGLDEPELLIHTLXKGVADNIK 206
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 0.129 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,523,618
Number of Sequences: 62578
Number of extensions: 783204
Number of successful extensions: 1328
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1302
Number of HSP's gapped (non-prelim): 27
length of query: 673
length of database: 14,973,337
effective HSP length: 105
effective length of query: 568
effective length of database: 8,402,647
effective search space: 4772703496
effective search space used: 4772703496
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)