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= psy8972
(170 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 = 138 bits (347), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 57/89 (64%), Positives = 74/89 (83%)
Query: 6 FVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIV 65
F+K+N+WK +FGKE DKLE+ANDD++TYY+IE+E L+N +ISVPK+ +LNCA F GIV
Sbjct: 88 FIKVNVWKALFGKEADKLEQANDDDKTYYIIEKEPLINAYISVPKENSTLNCAAFTGGIV 147
Query: 66 EAVLNNCGFKSTVTAHWHKGTTYMIQFDE 94
EA+L + GF + VT HWHKGTT MI+FDE
Sbjct: 148 EAILTHSGFPAKVTVHWHKGTTLMIKFDE 176
>pdb|2J3R|B Chain B, The Crystal Structure Of The Bet3-Trs31 Heterodimer
Length = 157
Score = 137 bits (345), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 57/89 (64%), Positives = 74/89 (83%)
Query: 6 FVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIV 65
F+K+N+WK +FGKE DKLE+ANDD++TYY+IE+E L+N +ISVPK+ +LNCA F GIV
Sbjct: 69 FIKVNVWKALFGKEADKLEQANDDDKTYYIIEKEPLINAYISVPKENSTLNCAAFTGGIV 128
Query: 66 EAVLNNCGFKSTVTAHWHKGTTYMIQFDE 94
EA+L + GF + VT HWHKGTT MI+FDE
Sbjct: 129 EAILTHSGFPAKVTVHWHKGTTLMIKFDE 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 = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 53/101 (52%), Gaps = 10/101 (9%)
Query: 1 MKLAKFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIF 60
+ + +F+ LW +F D L ++++ + Y +++ + +FI P + +++C F
Sbjct: 177 LDILQFIHGTLWSYLFNHVSDDLVKSSERDNEYMIVDNFPTLTQFI--PGE--NVSCEYF 232
Query: 61 VAGIVEAVLNNCGFKSTVTAH------WHKGTTYMIQFDEQ 95
V GI++ L N GF VTAH + T Y+IQFD Q
Sbjct: 233 VCGIIKGFLFNAGFPCGVTAHRMPQGGHSQRTVYLIQFDRQ 273
>pdb|2H80|A Chain A, Nmr Structures Of Sam Domain Of Deleted In Liver Cancer 2
(Dlc2)
pdb|2JW2|A Chain A, Validation Of Inter-Helical Orientation Of The
Steril-Alpha- Motif Of Human Deleted In Liver Cancer 2
By Residual Dipolar Couplings
Length = 81
Score = 33.5 bits (75), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 103 QIMEENIASQWRRGAGKVGRGACKGNQQLNYNLMAKPSGHDFCIILEPPLVRPRGYCEKL 162
Q +E A W R AG + Q N++A + HDF LE LV P C +L
Sbjct: 17 QEIEAKEACDWLRAAGFPQYAQLYEDSQFPINIVAVKNDHDF---LEKDLVEP--LCRRL 71
Query: 163 NSTTNKC 169
N T NKC
Sbjct: 72 N-TLNKC 77
>pdb|1VHV|A Chain A, Crystal Structure Of Diphthine Synthase
pdb|1VHV|B Chain B, Crystal Structure Of Diphthine Synthase
Length = 268
Score = 32.7 bits (73), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 40/96 (41%), Gaps = 21/96 (21%)
Query: 13 KNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKD----------------KGSLN 56
+ FGK +LER++ +E ++ LIE+ + + VP D KG
Sbjct: 59 EEFFGKRVVELERSDLEENSFRLIERAKSKSVVLLVPGDPXVATTHSAIKLEAERKGVKT 118
Query: 57 CAIFVAGIVEAV-----LNNCGFKSTVTAHWHKGTT 87
I A I AV L+N F + T WH+ T
Sbjct: 119 RIIHGASISTAVCGLTGLHNYRFGKSATVSWHRSQT 154
>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 = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 12/86 (13%)
Query: 1 MKLAKFVKINLWKNIFGKECDKLERANDD------ERTYYLIEQESLVNKFISVPKDKGS 54
+ + KF+ + W +F K+ D L R N + + L+ Q S +++ +
Sbjct: 64 LDIMKFICKDFWTTVFKKQIDNL-RTNHQGIYVLQDNKFRLLTQMSAGKQYLEHASKYLA 122
Query: 55 LNCAIFVAGIVEAVLNNCGFKSTVTA 80
C G++ L+N G KS VTA
Sbjct: 123 FTC-----GLIRGGLSNLGIKSIVTA 143
>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 = 30.8 bits (68), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 12/86 (13%)
Query: 1 MKLAKFVKINLWKNIFGKECDKLERANDD------ERTYYLIEQESLVNKFISVPKDKGS 54
+ + KF+ + W +F K+ D L R N + + L+ Q S +++ +
Sbjct: 62 LDIMKFICKDFWTTVFKKQIDNL-RTNHQGIYVLQDNKFRLLTQMSAGKQYLEHASKYLA 120
Query: 55 LNCAIFVAGIVEAVLNNCGFKSTVTA 80
C G++ L+N G KS VTA
Sbjct: 121 FTC-----GLIRGGLSNLGIKSIVTA 141
>pdb|3KXC|C Chain C, Mutant Transport Protein
Length = 158
Score = 30.8 bits (68), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 12/86 (13%)
Query: 1 MKLAKFVKINLWKNIFGKECDKLERANDD------ERTYYLIEQESLVNKFISVPKDKGS 54
+ + KF+ + W +F K+ D L R N + + L+ Q S +++ +
Sbjct: 62 LDIMKFICKDFWTTVFKKQIDNL-RTNHQGIYVLQDNKFRLLTQMSAGKQYLEHASKYLA 120
Query: 55 LNCAIFVAGIVEAVLNNCGFKSTVTA 80
C G++ L+N G KS VTA
Sbjct: 121 FTC-----GLIRGGLSNLGIKSIVTA 141
>pdb|4FDN|A Chain A, Mycobacterium Tuberculosis Dpre1 In Complex With Ct325 -
Hexagonal Crystal Form
pdb|4FDO|A Chain A, Mycobacterium Tuberculosis Dpre1 In Complex With Ct319
pdb|4FDP|A Chain A, Mycobacterium Tuberculosis Dpre1 - Monoclinic Crystal Form
pdb|4FDP|B Chain B, Mycobacterium Tuberculosis Dpre1 - Monoclinic Crystal Form
pdb|4FEH|A Chain A, Mycobacterium Tuberculosis Dpre1 - Hexagonal Crystal Form
pdb|4FF6|A Chain A, Mycobacterium Tuberculosis Dpre1 In Complex With Ct325 -
Monoclinic Crystal Form
pdb|4FF6|B Chain B, Mycobacterium Tuberculosis Dpre1 In Complex With Ct325 -
Monoclinic Crystal Form
Length = 481
Score = 29.6 bits (65), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%)
Query: 87 TYMIQFDEQEGKFTALQIMEENIASQWRRGAGKVGRGACKGNQQLNYNLMAKPSGHDFCI 146
T + D E ++T + I++ + G V RG +QL L ++P D
Sbjct: 232 TIALHSDGSEARYTYSSAWFDAISAPPKLGRAAVSRGRLATVEQLPAKLRSEPLKFDAPQ 291
Query: 147 ILEPPLVRPRGYCEK 161
+L P V P G K
Sbjct: 292 LLTLPDVFPNGLANK 306
>pdb|3FF1|A Chain A, Structure Of Glucose 6-Phosphate Isomerase From
Staphylococcus Aureus
pdb|3FF1|B Chain B, Structure Of Glucose 6-Phosphate Isomerase From
Staphylococcus Aureus
Length = 446
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/111 (22%), Positives = 43/111 (38%), Gaps = 4/111 (3%)
Query: 46 ISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHWHKGTTYMI----QFDEQEGKFTA 101
I++ KD L+ ++AG +N F+ T+ AH G + Q DE+ +
Sbjct: 336 ITIEKDSDDLDGLNYLAGKTIDEVNTKAFEGTLLAHTDGGVPNXVVNIPQLDEETFGYVV 395
Query: 102 LQIMEENIASQWRRGAGKVGRGACKGNQQLNYNLMAKPSGHDFCIILEPPL 152
S ++ G + + +Q + L+ KP D LE L
Sbjct: 396 YFFELACAXSGYQLGVNPFNQPGVEAYKQNXFALLGKPGFEDLKKELEERL 446
>pdb|1YWM|A Chain A, Crystal Structure Of The N-Terminal Domain Of Group B
Streptococcus Alpha C Protein
Length = 200
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 13/94 (13%)
Query: 52 KGSLNCAIFVAGIVEAVLNNCGFKSTVTAHWHKGTTYMIQFDEQEGKFTALQ--IMEENI 109
+GS+ A + G A LN +++T + G Y+ +D + GK LQ ++E+
Sbjct: 12 RGSIVAASTIPG-SAATLN-----TSITKNIQNGNAYIDLYDVKLGKIDPLQLIVLEQGF 65
Query: 110 ASQW--RRGA---GKVGRGACKGNQQLNYNLMAK 138
+++ R+G G V + G L YN+ +
Sbjct: 66 TAKYVFRQGTKYYGDVSQLQSTGRASLTYNIFGE 99
>pdb|2J04|A Chain A, The Tau60-Tau91 Subcomplex Of Yeast Transcription Factor
Iiic
pdb|2J04|C Chain C, The Tau60-Tau91 Subcomplex Of Yeast Transcription Factor
Iiic
Length = 588
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 64 IVEAVLNNCGFKSTVTAHWHKGTTYMIQFDEQEGKFTALQIMEENIA 110
+V A+ NN F TV+A H+ + MIQ + K T L+I++ +
Sbjct: 195 LVAALSNNSVFSMTVSASSHQPVSRMIQ-NASRRKITDLKIVDYKVV 240
>pdb|3GB8|A Chain A, Crystal Structure Of Crm1SNURPORTIN-1 Complex
Length = 1071
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 82 WHKGTTYMIQFDEQEGKFTALQIMEENIASQWRRGAGKVGRGACKGNQQLNYNLMAKPSG 141
W + T + K+ LQI+E I ++W+ + R C+G ++ L+ K S
Sbjct: 60 WTRVDTILEFSQNMNTKYYGLQILENVIKTRWK----ILPRNQCEGIKKYVVGLIIKTSS 115
Query: 142 HDFCI 146
C+
Sbjct: 116 DPTCV 120
>pdb|3GJX|A Chain A, Crystal Structure Of The Nuclear Export Complex Crm1-
Snurportin1-Rangtp
pdb|3GJX|D Chain D, Crystal Structure Of The Nuclear Export Complex Crm1-
Snurportin1-Rangtp
pdb|3NBY|A Chain A, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear
Export Complex
pdb|3NBY|D Chain D, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear
Export Complex
pdb|3NBZ|A Chain A, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal I)
pdb|3NBZ|D Chain D, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal I)
pdb|3NC0|A Chain A, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal Ii)
pdb|3NC0|D Chain D, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal Ii)
pdb|3NC1|A Chain A, Crystal Structure Of The Crm1-Rangtp Complex
Length = 1073
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 82 WHKGTTYMIQFDEQEGKFTALQIMEENIASQWRRGAGKVGRGACKGNQQLNYNLMAKPSG 141
W + T + K+ LQI+E I ++W+ + R C+G ++ L+ K S
Sbjct: 62 WTRVDTILEFSQNMNTKYYGLQILENVIKTRWK----ILPRNQCEGIKKYVVGLIIKTSS 117
Query: 142 HDFCI 146
C+
Sbjct: 118 DPTCV 122
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
0.320 0.136 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,269,738
Number of Sequences: 62578
Number of extensions: 210745
Number of successful extensions: 515
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 505
Number of HSP's gapped (non-prelim): 20
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)