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= 000425
(1525 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MKR|B Chain B, Crystal Structure Of Yeast AlphaEPSILON-Cop Subcomplex Of
The Copi Vesicular Coat
Length = 320
Score = 37.0 bits (84), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 37/165 (22%), Positives = 74/165 (44%), Gaps = 16/165 (9%)
Query: 1338 LALAKDHSRGADVKAQATICAQYKIAVTLLQEILRLQKVQGPSAAISAKDEMARLSRHLG 1397
L + + A+ + TIC +Y + +++ E +L P + + + ++ +
Sbjct: 134 LLVVDNKQEIAEAQQLITICREYIVGLSMETERKKL-----PKETLEQQKRICEMAAYFT 188
Query: 1398 SLPLQTKHRINCIRTAIKRNMEVQNY----AYAKQMLELLLSKAPASKQDELRSLIDMCV 1453
LQ H I +RTA+ +++N+ A+A+++LE L P Q + R ++ C
Sbjct: 189 HSNLQPVHMILVLRTALNLFFKLKNFRTAAAFARRLLE--LGPKPEVAQ-QTRKILSACE 245
Query: 1454 QRGLSNKSID-PLEDPSQFCAATLSRLSTIGYDV--CDLCGAKFS 1495
+ ++ + +P CAA+ + G V C L GA +S
Sbjct: 246 KNPTDAYQLNYDMHNPFDICAASYRPIYR-GKPVEKCPLSGACYS 289
>pdb|2YNO|A Chain A, Yeast Betaprime Cop 1-304h6
pdb|2YNO|B Chain B, Yeast Betaprime Cop 1-304h6
Length = 310
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 60 HPRLPVLYVAYADGLIRAYNIHTYAVHYTLQLDNTIKLLGAGAFAFHPT 108
HP LP++ DG ++ +N TY V TL + L + A HPT
Sbjct: 237 HPTLPIIISGSEDGTLKIWNSSTYKVEKTLN----VGLERSWCIATHPT 281
>pdb|2YNN|A Chain A, Yeast Betaprime Cop 1-304 With Ktktn Motif
Length = 304
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 60 HPRLPVLYVAYADGLIRAYNIHTYAVHYTLQLDNTIKLLGAGAFAFHPT 108
HP LP++ DG ++ +N TY V TL + L + A HPT
Sbjct: 237 HPTLPIIISGSEDGTLKIWNSSTYKVEKTLN----VGLERSWCIATHPT 281
>pdb|3MKQ|A Chain A, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|C Chain C, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|E Chain E, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
Length = 814
Score = 32.3 bits (72), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 60 HPRLPVLYVAYADGLIRAYNIHTYAVHYTLQLDNTIKLLGAGAFAFHPT 108
HP LP++ DG ++ +N TY V TL + L + A HPT
Sbjct: 237 HPTLPIIISGSEDGTLKIWNSSTYKVEKTLN----VGLERSWCIATHPT 281
>pdb|2YNP|A Chain A, Yeast Betaprime Cop 1-604 With Ktktn Motif
Length = 604
Score = 32.0 bits (71), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 60 HPRLPVLYVAYADGLIRAYNIHTYAVHYTLQLDNTIKLLGAGAFAFHPT 108
HP LP++ DG ++ +N TY V TL + L + A HPT
Sbjct: 237 HPTLPIIISGSEDGTLKIWNSSTYKVEKTLN----VGLERSWCIATHPT 281
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 31.6 bits (70), Expect = 3.6, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 28/66 (42%)
Query: 104 AFHPTLEWLFVGDRRGTLLAWDVSIERPSMIGIIQVGSQPITSVAWLPMLRLLVTLCRDG 163
A+ P +L T W + + + ++ + SVAW P LL T RD
Sbjct: 68 AWSPCGNYLASASFDATTCIWKKNQDDFECVTTLEGHENEVKSVAWAPSGNLLATCSRDK 127
Query: 164 SLQVWK 169
S+ VW+
Sbjct: 128 SVWVWE 133
>pdb|2HES|X Chain X, Cytosolic Iron-sulphur Assembly Protein- 1
Length = 330
Score = 31.2 bits (69), Expect = 4.8, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 111 WLFVGDRRGTLLAW--DVSIERPSMIGIIQVGSQPITSVAWLPMLRLLVTLCRDGSLQVW 168
+L R ++ W D S E I ++Q SQ + V W P LL + D ++++W
Sbjct: 121 YLATCSRDKSVWIWETDESGEEYECISVLQEHSQDVKHVIWHPSEALLASSSYDDTVRIW 180
Query: 169 K 169
K
Sbjct: 181 K 181
>pdb|1GXR|A Chain A, Wd40 Region Of Human Groucho/tle1
pdb|1GXR|B Chain B, Wd40 Region Of Human Groucho/tle1
pdb|2CE8|A Chain A, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|B Chain B, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|C Chain C, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|D Chain D, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|A Chain A, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|B Chain B, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|C Chain C, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|D Chain D, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain
Length = 337
Score = 30.8 bits (68), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%)
Query: 112 LFVGDRRGTLLAWDVSIERPSMIGIIQVGSQPITSVAWLPMLRLLVTLCRDGSLQVW 168
L VG TL WD++ P + + + ++A P ++ + C DG++ VW
Sbjct: 112 LIVGGEASTLSIWDLAAPTPRIKAELTSSAPACYALAISPDSKVCFSCCSDGNIAVW 168
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 0.134 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 42,928,246
Number of Sequences: 62578
Number of extensions: 1762183
Number of successful extensions: 3687
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 3664
Number of HSP's gapped (non-prelim): 34
length of query: 1525
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1414
effective length of database: 8,027,179
effective search space: 11350431106
effective search space used: 11350431106
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: 58 (26.9 bits)