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= 029156
(198 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J3W|B Chain B, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
pdb|2J3W|F Chain F, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
Length = 188
Score = 172 bits (436), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 85/177 (48%), Positives = 119/177 (67%), Gaps = 7/177 (3%)
Query: 11 SNVLDKPLSKGKQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELL 70
S +L++ L++ K EVS+SAFA LFSE+VQY Q++V +++EL+ RL D G VGA +L++L
Sbjct: 10 SAILERSLTRPKTEVSVSAFALLFSEMVQYCQSRVYSVSELQARLADMGQGVGASLLDVL 69
Query: 71 CHRDKGNRRETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEYMISEKELLVNRFIS 130
R+K +RET++L IL F+ VWK LFGK AD LE+ + + Y I EKE L+N +IS
Sbjct: 70 VMREKNGKRETKVLNILLFIKVNVWKALFGKEADKLEQANDDDKTYYIIEKEPLINAYIS 129
Query: 131 IPKDMGTFNCGAFVAGIVRGVLDSAGFPAVVTAHFVPVEGQQRPRTTILIKFAEEVL 187
+PK+ T NC AF GIV +L +GFPA VT H+ TT++IKF E V+
Sbjct: 130 VPKENSTLNCAAFTGGIVEAILTHSGFPAKVTVHW-------HKGTTLMIKFDESVI 179
>pdb|2J3R|B Chain B, The Crystal Structure Of The Bet3-Trs31 Heterodimer
Length = 157
Score = 164 bits (414), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 81/163 (49%), Positives = 109/163 (66%), Gaps = 7/163 (4%)
Query: 22 KQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELLCHRDKGNRRET 81
K EVS+SAFA LFSE+VQY Q++V +++EL+ RL D G VGA +L++L R+K +RET
Sbjct: 2 KTEVSVSAFALLFSEMVQYCQSRVYSVSELQARLADMGQGVGASLLDVLVMREKNGKRET 61
Query: 82 RLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEYMISEKELLVNRFISIPKDMGTFNCG 141
++L IL F+ VWK LFGK AD LE+ + + Y I EKE L+N +IS+PK+ T NC
Sbjct: 62 KVLNILLFIKVNVWKALFGKEADKLEQANDDDKTYYIIEKEPLINAYISVPKENSTLNCA 121
Query: 142 AFVAGIVRGVLDSAGFPAVVTAHFVPVEGQQRPRTTILIKFAE 184
AF GIV +L +GFPA VT H+ TT++IKF E
Sbjct: 122 AFTGGIVEAILTHSGFPAKVTVHW-------HKGTTLMIKFDE 157
>pdb|3CUE|B Chain B, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|H Chain H, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|N Chain N, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|T Chain T, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 283
Score = 89.7 bits (221), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 48/113 (42%), Positives = 69/113 (61%), Gaps = 5/113 (4%)
Query: 75 KGNRRETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEYMISEKELLVNRFISIPKD 134
K RR+ ++L IL F+H T+W LF V+D L K +E ++EYMI + + +F IP +
Sbjct: 168 KMRRRDLKILDILQFIHGTLWSYLFNHVSDDLVKSSERDNEYMIVDNFPTLTQF--IPGE 225
Query: 135 MGTFNCGAFVAGIVRGVLDSAGFPAVVTAHFVPVEGQQRPRTTILIKFAEEVL 187
+C FV GI++G L +AGFP VTAH +P +G RT LI+F +VL
Sbjct: 226 --NVSCEYFVCGIIKGFLFNAGFPCGVTAHRMP-QGGHSQRTVYLIQFDRQVL 275
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 30/52 (57%)
Query: 22 KQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELLCHR 73
+QE SLSA AFLF E++ + E +L D G+ +G R+LELL R
Sbjct: 54 RQEASLSAMAFLFQEMISQLHRTCKTAGDFETKLSDYGHNIGIRLLELLNFR 105
>pdb|2CFH|C Chain C, Structure Of The Bet3-Tpc6b Core Of Trapp
pdb|2CFH|D Chain D, Structure Of The Bet3-Tpc6b Core Of Trapp
Length = 158
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 54 RLEDAGYAVGARVLELLCHRDKGNRRETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHE 113
+LE+ G+ VG ++E K R L I+ F+ W +F K D+L T H+
Sbjct: 35 KLENMGFRVGQGLIERFT---KDTARFKDELDIMKFICKDFWTTVFKKQIDNLR--TNHQ 89
Query: 114 DEYMISEKELLVNRFISIPKDMGTFNCG--AFVAGIVRGVLDSAGFPAVVTA 163
Y++ + + + +S K AF G++RG L + G ++VTA
Sbjct: 90 GIYVLQDNKFRLLTQMSAGKQYLEHASKYLAFTCGLIRGGLSNLGIKSIVTA 141
>pdb|3KXC|C Chain C, Mutant Transport Protein
Length = 158
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 54 RLEDAGYAVGARVLELLCHRDKGNRRETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHE 113
+LE+ G+ VG ++E K R L I+ F+ W +F K D+L T H+
Sbjct: 35 KLENMGFRVGQGLIERF---TKDTARFKDELDIMKFICKDFWTTVFKKQIDNLR--TNHQ 89
Query: 114 DEYMISEKELLVNRFISIPKDMGTFNCG--AFVAGIVRGVLDSAGFPAVVTA 163
Y++ + + + +S K AF G++RG L + G ++VTA
Sbjct: 90 GIYVLQDNKFRLLTQMSAGKQYLEHASKYLAFTCGLIRGGLSNLGIKSIVTA 141
>pdb|2BJN|A Chain A, X-Ray Structure Of Human Tpc6
pdb|2BJN|B Chain B, X-Ray Structure Of Human Tpc6
Length = 160
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 63/141 (44%), Gaps = 13/141 (9%)
Query: 30 FAFLFSELVQ-----YNQTQVDNIAELERRLEDAGYAVGARVLELLCHRDKGNRRETRLL 84
F L +E+V Q +V+N +LE+ G+ VG ++E K R L
Sbjct: 9 FLLLHNEMVSGVYKSAEQGEVEN-GRCITKLENMGFRVGQGLIERF---TKDTARFKDEL 64
Query: 85 GILSFVHSTVWKVLFGKVADSLEKGTEHEDEYMISEKELLVNRFISIPKDMGTFNCG--A 142
I+ F+ W +F K D+L T H+ Y++ + + + +S K A
Sbjct: 65 DIMKFICKDFWTTVFKKQIDNLR--TNHQGIYVLQDNKFRLLTQMSAGKQYLEHASKYLA 122
Query: 143 FVAGIVRGVLDSAGFPAVVTA 163
F G++RG L + G ++VTA
Sbjct: 123 FTCGLIRGGLSNLGIKSIVTA 143
>pdb|2J3T|B Chain B, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex
Length = 159
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 52/116 (44%), Gaps = 17/116 (14%)
Query: 55 LEDAGYAVGARVLELLCHRDKGNRRETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHED 114
LE G+ VG + E L R E L +L F+ +W +F K DSL T H+
Sbjct: 37 LEGMGFRVGQALGERLPRETLAFREE---LDVLKFLCKDLWVAVFQKQMDSLR--TNHQG 91
Query: 115 EYMISEKELLVNRF-ISIPKDMG------TFNCGAFVAGIVRGVLDSAGFPAVVTA 163
Y++ + N F + +P G AF G++RG L + G +VVTA
Sbjct: 92 TYVLQD-----NSFPLLLPMASGLQYLEEAPKFLAFTCGLLRGALYTLGIESVVTA 142
>pdb|2C0J|B Chain B, Crystal Structure Of The Bet3-Trs33 Heterodimer
Length = 160
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 52/116 (44%), Gaps = 17/116 (14%)
Query: 55 LEDAGYAVGARVLELLCHRDKGNRRETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHED 114
LE G+ VG + E L R E L +L F+ +W +F K DSL T H+
Sbjct: 38 LEGMGFRVGQALGERLPRETLAFREE---LDVLKFLCKDLWVAVFQKQMDSLR--TNHQG 92
Query: 115 EYMISEKELLVNRF-ISIPKDMG------TFNCGAFVAGIVRGVLDSAGFPAVVTA 163
Y++ + N F + +P G AF G++RG L + G +VVTA
Sbjct: 93 TYVLQD-----NSFPLLLPMASGLQYLEEAPKFLAFTCGLLRGALYTLGIESVVTA 143
>pdb|2J3R|A Chain A, The Crystal Structure Of The Bet3-Trs31 Heterodimer.
pdb|2J3T|A Chain A, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23
Complex.
pdb|2J3W|D Chain D, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
pdb|2J3W|E Chain E, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
Length = 182
Score = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 36/161 (22%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 13 VLDKPLSKGKQEVSLSA--FAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELL 70
+ + ++G + +S+ F + LV +N ++ ++L+ GY +G R++E
Sbjct: 2 AMSRQANRGTESKKMSSELFTLTYGALVTQLCKDYENDEDVNKQLDRMGYNIGVRLIEDF 61
Query: 71 CHRDKGNR----RETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEY-MISEKELLV 125
R R RET + +K+ G + S+ + DE+ +I E LV
Sbjct: 62 LARSNVGRCHDFRET-----ADVIAKVAFKMYLG-ITPSITNWSPAGDEFSLILENNPLV 115
Query: 126 NRFISIPKDMGTFNCGAFVAGIVRGVLDSAGFPAVVTAHFV 166
+ F+ +P + + G++RG L+ V A FV
Sbjct: 116 D-FVELPDNHSALIYSNLLCGVLRGALEMVQM--AVEAKFV 153
>pdb|1WC8|A Chain A, The Crystal Structure Of Mouse Bet3p
Length = 180
Score = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 69/160 (43%), Gaps = 16/160 (10%)
Query: 14 LDKPLSKGKQEVSLSA--FAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELLC 71
+ + ++G + +S+ F + LV +N ++ ++L+ GY +G R++E
Sbjct: 1 MSRQANRGTESKKMSSELFTLTYGALVTQLCKDYENDEDVNKQLDRMGYNIGVRLIEDFL 60
Query: 72 HRDKGNR----RETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEY-MISEKELLVN 126
R R RET + +K+ G + S+ + DE+ +I E LV+
Sbjct: 61 ARSNVGRCHDFRET-----ADVIAKVAFKMYLG-ITPSITNWSPAGDEFSLILENNPLVD 114
Query: 127 RFISIPKDMGTFNCGAFVAGIVRGVLDSAGFPAVVTAHFV 166
F+ +P + + G++RG L+ V A FV
Sbjct: 115 -FVELPDNHSALIYSNLLCGVLRGALEMVQM--AVEAKFV 151
>pdb|1WC9|A Chain A, The Crystal Structure Of Truncated Mouse Bet3p
Length = 165
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 35/149 (23%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 23 QEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELLCHRDKGNR---- 78
+++S F + LV +N ++ ++L+ GY +G R++E R R
Sbjct: 5 KKMSSELFTLTYGALVTQLCKDYENDEDVNKQLDRMGYNIGVRLIEDFLARSNVGRCHDF 64
Query: 79 RETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEY-MISEKELLVNRFISIPKDMGT 137
RET + +K+ G + S+ + DE+ +I E LV+ F+ +P +
Sbjct: 65 RET-----ADVIAKVAFKMYLG-ITPSITNWSPAGDEFSLILENNPLVD-FVELPDNHSA 117
Query: 138 FNCGAFVAGIVRGVLDSAGFPAVVTAHFV 166
+ G++RG L+ V A FV
Sbjct: 118 LIYSNLLCGVLRGALEMVQM--AVEAKFV 144
>pdb|2PWN|A Chain A, Crystal Structure Of Bet3 Homolog (13277653) From Mus
Musculus At 2.04 A Resolution
Length = 192
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 39/171 (22%), Positives = 71/171 (41%), Gaps = 16/171 (9%)
Query: 3 GVGKIKQYSNVLDKPLSKGKQEVSLSA--FAFLFSELVQYNQTQVDNIAELERRLEDAGY 60
G KI + + + ++G + S+ F + LV +N ++ ++L+ GY
Sbjct: 2 GSDKIHHHHHHXSRQANRGTESKKXSSELFTLTYGALVTQLCKDYENDEDVNKQLDRXGY 61
Query: 61 AVGARVLELLCHRDKGNR----RETRLLGILSFVHSTVWKVLFGKVADSLEKGTEHEDEY 116
+G R++E R R RET + +K G + S+ + DE+
Sbjct: 62 NIGVRLIEDFLARSNVGRCHDFRET-----ADVIAKVAFKXYLG-ITPSITNWSPAGDEF 115
Query: 117 -MISEKELLVNRFISIPKDMGTFNCGAFVAGIVRGVLDSAGFPAVVTAHFV 166
+I E LV+ F+ +P + + G++RG L+ V A FV
Sbjct: 116 SLILENNPLVD-FVELPDNHSALIYSNLLCGVLRGALEXV--QXAVEAKFV 163
>pdb|2C0J|A Chain A, Crystal Structure Of The Bet3-Trs33 Heterodimer
Length = 161
Score = 33.9 bits (76), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 60/142 (42%), Gaps = 14/142 (9%)
Query: 30 FAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLELLCHRDKGNR----RETRLLG 85
F + LV +N ++ ++L+ GY +G R++E R R RET
Sbjct: 5 FTLTYGALVTQLCKDYENDEDVNKQLDRMGYNIGVRLIEDFLARSNVGRCHDFRETA--- 61
Query: 86 ILSFVHSTVWKVLFGKVADSLEKGTEHEDEY-MISEKELLVNRFISIPKDMGTFNCGAFV 144
+ +K+ G + S+ + DE+ +I E LV+ F+ +P + +
Sbjct: 62 --DVIAKVAFKMYLG-ITPSITNWSPAGDEFSLILENNPLVD-FVELPDNHSALIYSNLL 117
Query: 145 AGIVRGVLDSAGFPAVVTAHFV 166
G++RG L+ V A FV
Sbjct: 118 CGVLRGALEMVQM--AVEAKFV 137
>pdb|2HS0|A Chain A, T. Maritima Purl Complexed With Atp
pdb|2HS3|A Chain A, T. Maritima Purl Complexed With Fgar
pdb|2HS4|A Chain A, T. Maritima Purl Complexed With Fgar And Amppcp
Length = 603
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 9 QYSNVLDKPLSKGKQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLE 68
+Y N+L + L + V L AF+ ++SE Y+ T+ + RRL G+ A V+
Sbjct: 4 RYLNILKEKLGREPTFVELQAFSVMWSEHCGYSHTK-----KYIRRLPKTGFEGNAGVVN 58
Query: 69 L 69
L
Sbjct: 59 L 59
>pdb|2HRU|A Chain A, T. Maritima Purl Complexed With Adp
pdb|2HRY|A Chain A, T. Maritima Purl Complexed With Amppcp
Length = 603
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 9 QYSNVLDKPLSKGKQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLE 68
+Y N+L + L + V L AF+ ++SE Y+ T+ + RRL G+ A V+
Sbjct: 4 RYLNILKEKLGREPTFVELQAFSVMWSEHCGYSHTK-----KYIRRLPKTGFEGNAGVVN 58
Query: 69 L 69
L
Sbjct: 59 L 59
>pdb|3D54|A Chain A, Stucture Of Purlqs From Thermotoga Maritima
pdb|3D54|E Chain E, Stucture Of Purlqs From Thermotoga Maritima
pdb|3D54|I Chain I, Stucture Of Purlqs From Thermotoga Maritima
Length = 629
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 9 QYSNVLDKPLSKGKQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLE 68
+Y N+L + L + V L AF+ ++SE Y+ T+ + RRL G+ A V+
Sbjct: 30 RYLNILKEKLGREPTFVELQAFSVMWSEHCGYSHTK-----KYIRRLPKTGFEGNAGVVN 84
Query: 69 L 69
L
Sbjct: 85 L 85
>pdb|1ZJ8|A Chain A, Structure Of Mycobacterium Tuberculosis Nira Protein
pdb|1ZJ8|B Chain B, Structure Of Mycobacterium Tuberculosis Nira Protein
pdb|1ZJ9|A Chain A, Structure Of Mycobacterium Tuberculosis Nira Protein
pdb|1ZJ9|B Chain B, Structure Of Mycobacterium Tuberculosis Nira Protein
Length = 566
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 38 VQYNQTQVDNIAELERRLEDAG 59
VQY+ +V+N+ E+ RRL+D G
Sbjct: 144 VQYHWIEVENVPEIWRRLDDVG 165
>pdb|1VK3|A Chain A, Crystal Structure Of Phosphoribosylformylglycinamidine
Synthase Ii (Tm1246) From Thermotoga Maritima At 2.15 A
Resolution
Length = 615
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 9 QYSNVLDKPLSKGKQEVSLSAFAFLFSELVQYNQTQVDNIAELERRLEDAGYAVGARVLE 68
+Y N+L + L + V L AF+ +SE Y+ T+ + RRL G+ A V+
Sbjct: 16 RYLNILKEKLGREPTFVELQAFSVXWSEHCGYSHTK-----KYIRRLPKTGFEGNAGVVN 70
Query: 69 L 69
L
Sbjct: 71 L 71
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
0.322 0.138 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,479,315
Number of Sequences: 62578
Number of extensions: 218123
Number of successful extensions: 439
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 426
Number of HSP's gapped (non-prelim): 25
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)