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= 039964
(175 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 33/87 (37%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 7 HFSLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGKIPSGT 66
H ++G I ++G L+ L+ LDLS N+ G I +DLS NNLSG IP
Sbjct: 662 HNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMG 721
Query: 67 QLQSFNALTYAGNE-LCGLPLPNKCPT 92
Q ++F + N LCG PLP P+
Sbjct: 722 QFETFPPAKFLNNPGLCGYPLPRCDPS 748
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 2/88 (2%)
Query: 1 MWLACVHFSLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSG 60
M+L + L+G I +IG + L L+L N G I ++DLS N L G
Sbjct: 632 MFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 691
Query: 61 KIPSG-TQLQSFNALTYAGNELCGLPLP 87
+IP + L + + N L G P+P
Sbjct: 692 RIPQAMSALTMLTEIDLSNNNLSG-PIP 718
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%)
Query: 2 WLACVHFSLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGK 61
W++ + LTG+I IG+L++L L LS N F G I +DL+ N +G
Sbjct: 491 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT 550
Query: 62 IPSGTQLQS 70
IP+ QS
Sbjct: 551 IPAAMFKQS 559
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 12 GQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGKIPSGT-QLQS 70
G +P S+ FLD+S N G I +++L +N++SG IP L+
Sbjct: 619 GHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRG 678
Query: 71 FNALTYAGNELCG 83
N L + N+L G
Sbjct: 679 LNILDLSSNKLDG 691
Score = 34.3 bits (77), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 3 LACVHFS---LTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLS 59
L +H S L+G I +G L L L L N G I + L +N+L+
Sbjct: 417 LVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLT 476
Query: 60 GKIPSG-TQLQSFNALTYAGNELCG 83
G+IPSG + + N ++ + N L G
Sbjct: 477 GEIPSGLSNCTNLNWISLSNNRLTG 501
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 3/85 (3%)
Query: 2 WLACVHFSLTGQITPKI-GQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSG 60
+L+ TG+I + G +L LDLS N F+G + + LS NN SG
Sbjct: 270 YLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSG 329
Query: 61 KIPSGT--QLQSFNALTYAGNELCG 83
++P T +++ L + NE G
Sbjct: 330 ELPMDTLLKMRGLKVLDLSFNEFSG 354
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 33/87 (37%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 7 HFSLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGKIPSGT 66
H ++G I ++G L+ L+ LDLS N+ G I +DLS NNLSG IP
Sbjct: 665 HNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMG 724
Query: 67 QLQSFNALTYAGNE-LCGLPLPNKCPT 92
Q ++F + N LCG PLP P+
Sbjct: 725 QFETFPPAKFLNNPGLCGYPLPRCDPS 751
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 2/88 (2%)
Query: 1 MWLACVHFSLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSG 60
M+L + L+G I +IG + L L+L N G I ++DLS N L G
Sbjct: 635 MFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 694
Query: 61 KIPSG-TQLQSFNALTYAGNELCGLPLP 87
+IP + L + + N L G P+P
Sbjct: 695 RIPQAMSALTMLTEIDLSNNNLSG-PIP 721
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%)
Query: 2 WLACVHFSLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGK 61
W++ + LTG+I IG+L++L L LS N F G I +DL+ N +G
Sbjct: 494 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT 553
Query: 62 IPSGTQLQS 70
IP+ QS
Sbjct: 554 IPAAMFKQS 562
Score = 34.7 bits (78), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 12 GQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGKIPSGT-QLQS 70
G +P S+ FLD+S N G I +++L +N++SG IP L+
Sbjct: 622 GHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRG 681
Query: 71 FNALTYAGNELCG 83
N L + N+L G
Sbjct: 682 LNILDLSSNKLDG 694
Score = 34.3 bits (77), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 3 LACVHFS---LTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLS 59
L +H S L+G I +G L L L L N G I + L +N+L+
Sbjct: 420 LVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLT 479
Query: 60 GKIPSG-TQLQSFNALTYAGNELCG 83
G+IPSG + + N ++ + N L G
Sbjct: 480 GEIPSGLSNCTNLNWISLSNNRLTG 504
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 3/85 (3%)
Query: 2 WLACVHFSLTGQITPKI-GQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSG 60
+L+ TG+I + G +L LDLS N F+G + + LS NN SG
Sbjct: 273 YLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSG 332
Query: 61 KIPSGT--QLQSFNALTYAGNELCG 83
++P T +++ L + NE G
Sbjct: 333 ELPMDTLLKMRGLKVLDLSFNEFSG 357
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 53.5 bits (127), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 17 KIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGKIPSGTQLQSFNALTY 76
K+G K+L+ LDL N+ +G + +++S+NNL G+IP G LQ F+ Y
Sbjct: 239 KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAY 298
Query: 77 AGNE-LCGLPLP 87
A N+ LCG PLP
Sbjct: 299 ANNKCLCGSPLP 310
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 9 SLTGQITPKIGQLKSLDFLDLSRNQFFGGIXXXXXXXXXXXVMDLSYNNLSGKI-PSGTQ 67
+L G I P I +L L +L ++ G I +D SYN LSG + PS +
Sbjct: 88 NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISS 147
Query: 68 LQSFNALTYAGNELCG 83
L + +T+ GN + G
Sbjct: 148 LPNLVGITFDGNRISG 163
>pdb|1EZV|X Chain X, Structure Of The Yeast Cytochrome Bc1 Complex Co-
Crystallized With An Antibody Fv-Fragment
pdb|1KYO|J Chain J, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KYO|U Chain U, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KB9|J Chain J, Yeast Cytochrome Bc1 Complex
pdb|1P84|J Chain J, Hdbt Inhibited Yeast Cytochrome Bc1 Complex
pdb|2IBZ|X Chain X, Yeast Cytochrome Bc1 Complex With Stigmatellin
pdb|3CX5|J Chain J, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core Interface
For Electron Transfer.
pdb|3CX5|U Chain U, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core Interface
For Electron Transfer.
pdb|3CXH|J Chain J, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome C
Bound And Definition Of A Minimal Core Interface For
Electron Transfer.
pdb|3CXH|U Chain U, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome C
Bound And Definition Of A Minimal Core Interface For
Electron Transfer
Length = 127
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 101 KDNANTLEEEDQFITLGFYVSLILGFFVGFWGFCGTLLVKSSWRH 145
K N+ T E+ + + G+ + +WG T+ V S+WRH
Sbjct: 82 KLNSVTTEDTATYYCARSEYYSVTGYAMDYWGQGTTVTVSSAWRH 126
>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core
Complex
pdb|3TJZ|D Chain D, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core
Complex
Length = 164
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 115 TLGFYVSLILGFFVGF--WGFCGTLLVKSSWRHHYYN 149
T+GF V + + F W G ++S WRH+Y N
Sbjct: 31 TIGFNVETVQYKNISFTVWDVGGQDRIRSLWRHYYRN 67
>pdb|1H3F|A Chain A, Tyrosyl-Trna Synthetase From Thermus Thermophilus
Complexed With Tyrosinol
pdb|1H3F|B Chain B, Tyrosyl-Trna Synthetase From Thermus Thermophilus
Complexed With Tyrosinol
pdb|1H3E|A Chain A, Tyrosyl-Trna Synthetase From Thermus Thermophilus
Complexed With Wild-Type Trnatyr(Gua) And With Atp And
Tyrosinol
Length = 432
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 23/50 (46%)
Query: 83 GLPLPNKCPTEESAPGPGKDNANTLEEEDQFITLGFYVSLILGFFVGFWG 132
G PL K + + P +A L + QF LG V LI+G F G G
Sbjct: 35 GRPLTVKLGADPTRPDLHLGHAVVLRKMRQFQELGHKVVLIIGDFTGMIG 84
>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2
(Scarf2) Complexed With Gdp-3'p At 1.6a Resolution
Length = 181
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 115 TLGFYVSLILGFFVGF--WGFCGTLLVKSSWRHHYYN 149
T+GF V + + F W G ++S WRH+Y N
Sbjct: 48 TIGFNVETVQYKNISFTVWDVGGQDRIRSLWRHYYRN 84
>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein,
Gdp- Bound
Length = 181
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 115 TLGFYVSLILGFFVGF--WGFCGTLLVKSSWRHHYYN 149
T+GF V + + F W G ++S WRH+Y N
Sbjct: 48 TIGFNVETVQYKNISFTVWDVGGQDRIRSLWRHYYRN 84
>pdb|1U2R|A Chain A, Crystal Structure Of Adp-Ribosylated Ribosomal Translocase
From Saccharomyces Cerevisiae
pdb|1ZM2|A Chain A, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|C Chain C, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|E Chain E, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM3|A Chain A, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|C Chain C, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|E Chain E, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM4|A Chain A, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|C Chain C, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|E Chain E, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM9|A Chain A, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|C Chain C, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|E Chain E, Structure Of Eef2-Eta In Complex With Pj34
pdb|2P8X|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-Eef2:gdpnp
Cryo-Em Reconstruction
pdb|2P8Y|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdp:sordarin Cryo-Em Reconstruction
pdb|2P8Z|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdpnp:sordarin Cryo-Em Reconstruction
pdb|3B78|A Chain A, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|C Chain C, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|E Chain E, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B82|A Chain A, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|C Chain C, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|E Chain E, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B8H|A Chain A, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|C Chain C, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|E Chain E, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|2ZIT|A Chain A, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|C Chain C, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|E Chain E, Structure Of The Eef2-Exoa-Nad+ Complex
Length = 842
Score = 26.6 bits (57), Expect = 7.6, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 7/88 (7%)
Query: 93 EESAPGPGKD-NANTLEEEDQFITLGFYVSLIL-----GFFVGFWG-FCGTLLVKSSWRH 145
E+ GP D N ++ D L YVS ++ G F F F GT+ R
Sbjct: 354 EQLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRI 413
Query: 146 HYYNFLPGIKNWFYVTAVVNIAKLQRRF 173
N++PG K+ ++ A+ + + RF
Sbjct: 414 QGPNYVPGKKDDLFIKAIQRVVLMMGRF 441
>pdb|1N0V|C Chain C, Crystal Structure Of Elongation Factor 2
pdb|1N0V|D Chain D, Crystal Structure Of Elongation Factor 2
pdb|1N0U|A Chain A, Crystal Structure Of Yeast Elongation Factor 2 In Complex
With Sordarin
pdb|1S1H|T Chain T, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i.
pdb|2E1R|A Chain A, Structure Of Eef2 In Complex With A Sordarin Derivative
pdb|2NPF|A Chain A, Structure Of Eef2 In Complex With Moriniafungin
pdb|2NPF|B Chain B, Structure Of Eef2 In Complex With Moriniafungin
pdb|2P8W|T Chain T, Fitted Structure Of Eef2 In The 80s:eef2:gdpnp Cryo-Em
Reconstruction
pdb|3DNY|T Chain T, Fitting Of The Eef2 Crystal Structure Into The Cryo-Em
Density Map Of The Eef2.80s.Alf4-.Gdp Complex
Length = 842
Score = 26.6 bits (57), Expect = 7.6, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 7/88 (7%)
Query: 93 EESAPGPGKD-NANTLEEEDQFITLGFYVSLIL-----GFFVGFWG-FCGTLLVKSSWRH 145
E+ GP D N ++ D L YVS ++ G F F F GT+ R
Sbjct: 354 EQLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRI 413
Query: 146 HYYNFLPGIKNWFYVTAVVNIAKLQRRF 173
N++PG K+ ++ A+ + + RF
Sbjct: 414 QGPNYVPGKKDDLFIKAIQRVVLMMGRF 441
>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound
Conformation
Length = 181
Score = 26.2 bits (56), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 115 TLGFYVSLILGFFVGF--WGFCGTLLVKSSWRHHYYN 149
T+GF V + + F W G ++S WRH+Y N
Sbjct: 48 TIGFNVECVQYCNISFTVWDVGGQDRIRSLWRHYYCN 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
0.324 0.141 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,376,620
Number of Sequences: 62578
Number of extensions: 206218
Number of successful extensions: 382
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 344
Number of HSP's gapped (non-prelim): 39
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)