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= 012889
(454 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/42 (52%), Positives = 31/42 (73%)
Query: 407 LPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQVC 448
LP+ SV +LR WL+EH + YPS+ +K +L++QT LS QVC
Sbjct: 12 LPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVC 53
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 33/45 (73%), Gaps = 1/45 (2%)
Query: 404 QRG-LPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
+RG LP+ + +V+R+WLF+H HPYP++ +K +A QT L+ QV
Sbjct: 10 KRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQV 54
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 28/41 (68%)
Query: 407 LPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
P+ + ++ RAWLF+H HPYPS+ K LA+ TGL+ QV
Sbjct: 5 FPKVATNIXRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQV 45
>pdb|2DMN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Tgif2lx
Length = 83
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 27/42 (64%)
Query: 407 LPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQVC 448
LP SV +LR W+++H YPS+ +K +L+ +T LS Q+
Sbjct: 14 LPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQIS 55
>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 = 36.6 bits (83), Expect = 0.027, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 402 RPQRGLPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
R +R +++ +L + + H +PYPS+ K LAR+ G++ SQV
Sbjct: 3 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQV 48
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 36.6 bits (83), Expect = 0.029, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 29/46 (63%)
Query: 402 RPQRGLPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
R +R +++ +L + + H +PYPS+ K LA+++G++ SQV
Sbjct: 4 RKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQV 49
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 36.2 bits (82), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 405 RGLPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
R + +++ +L + + H +PYPS+ K LA++ G++ SQV
Sbjct: 8 RHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQV 50
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 35.8 bits (81), Expect = 0.045, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 28/46 (60%)
Query: 402 RPQRGLPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
R +R +++ +L + + H +PYPS+ K LA++ G++ SQV
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQV 48
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 35.8 bits (81), Expect = 0.052, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 28/46 (60%)
Query: 402 RPQRGLPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
R +R +++ +L + + H +PYPS+ K LA++ G++ SQV
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQV 48
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 25/39 (64%), Gaps = 3/39 (7%)
Query: 409 ERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
E+S VLR W + H +PYPS +K LA TGL+ +QV
Sbjct: 503 EKSRGVLREW-YAH--NPYPSPREKRELAEATGLTTTQV 538
>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 = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 391 QQMSMMESHPWRPQRGLPERSVSVLRAWLFEHFLHPYPSDVDKHILARQTGLSRSQV 447
Q M + P+R R E +V +L +W ++ +PY L + T LSR Q+
Sbjct: 19 QDMINKSTKPYRGHRFTKE-NVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQI 74
>pdb|3OB8|A Chain A, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis In Complex With Galactose
pdb|3OB8|B Chain B, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis In Complex With Galactose
pdb|3OB8|D Chain D, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis In Complex With Galactose
pdb|3OB8|C Chain C, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis In Complex With Galactose
pdb|3OBA|A Chain A, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis
pdb|3OBA|C Chain C, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis
pdb|3OBA|D Chain D, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis
pdb|3OBA|B Chain B, Structure Of The Beta-Galactosidase From Kluyveromyces
Lactis
Length = 1032
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 239 KEFCSLGTKQNDATKLKSN-KAKQQWDDEN 267
KEF S TK+N+ T K N KA + W EN
Sbjct: 281 KEFISFSTKKNEETAFKINVKAPEHWTAEN 310
>pdb|1G20|A Chain A, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|C Chain C, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|A Chain A, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|C Chain C, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|3U7Q|A Chain A, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
pdb|3U7Q|C Chain C, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
Length = 492
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 77 DHQFNKQDFTTGMSETSGENLIVGHDHSDVAGAWQENNSRLLVDDSSLRCVFPCEGN 133
D K+D T + T + I+G D++ AW +SR+L+++ LRCV G+
Sbjct: 204 DWVLGKRDEDTTFASTPYDVAIIG-DYNIGGDAW---SSRILLEEMGLRCVAQWSGD 256
>pdb|3K1A|A Chain A, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
pdb|3K1A|C Chain C, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
Length = 491
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 77 DHQFNKQDFTTGMSETSGENLIVGHDHSDVAGAWQENNSRLLVDDSSLRCVFPCEGN 133
D K+D T + T + I+G D++ AW +SR+L+++ LRCV G+
Sbjct: 203 DWVLGKRDEDTTFASTPYDVAIIG-DYNIGGDAW---SSRILLEEMGLRCVAQWSGD 255
>pdb|3MIN|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|3MIN|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|1N2C|A Chain A, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|C Chain C, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1L5H|A Chain A, Femo-Cofactor Deficient Nitrogenase Mofe Protein
pdb|1M1N|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|E Chain E, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|G Chain G, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1Y|A Chain A, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|C Chain C, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|I Chain I, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|K Chain K, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M34|A Chain A, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|C Chain C, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|I Chain I, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|K Chain K, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|2AFH|A Chain A, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFH|C Chain C, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFI|A Chain A, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|C Chain C, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|I Chain I, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|K Chain K, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFK|A Chain A, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|C Chain C, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
Length = 491
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 77 DHQFNKQDFTTGMSETSGENLIVGHDHSDVAGAWQENNSRLLVDDSSLRCVFPCEGN 133
D K+D T + T + I+G D++ AW +SR+L+++ LRCV G+
Sbjct: 203 DWVLGKRDEDTTFASTPYDVAIIG-DYNIGGDAW---SSRILLEEMGLRCVAQWSGD 255
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 0.130 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,345,609
Number of Sequences: 62578
Number of extensions: 459779
Number of successful extensions: 937
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 927
Number of HSP's gapped (non-prelim): 17
length of query: 454
length of database: 14,973,337
effective HSP length: 102
effective length of query: 352
effective length of database: 8,590,381
effective search space: 3023814112
effective search space used: 3023814112
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: 53 (25.0 bits)