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= psy12460
(171 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BAY|A Chain A, Crystal Structure Of The Prp19 U-Box Dimer
pdb|2BAY|B Chain B, Crystal Structure Of The Prp19 U-Box Dimer
pdb|2BAY|C Chain C, Crystal Structure Of The Prp19 U-Box Dimer
pdb|2BAY|D Chain D, Crystal Structure Of The Prp19 U-Box Dimer
pdb|2BAY|E Chain E, Crystal Structure Of The Prp19 U-Box Dimer
pdb|2BAY|F Chain F, Crystal Structure Of The Prp19 U-Box Dimer
Length = 61
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 38/49 (77%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLIDI 58
+S +VP PV+SP S ++FEK L+E+Y+K+ G DPI E L++E++++I
Sbjct: 8 ISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEI 56
>pdb|1N87|A Chain A, Solution Structure Of The U-Box Of Prp19
Length = 56
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 38/49 (77%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLIDI 58
+S +VP PV+SP S ++FEK L+E+Y+K+ G DPI E L++E++++I
Sbjct: 5 ISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEI 53
>pdb|3QJ4|A Chain A, Crystal Structure Of Human Renalase (Isoform 1)
pdb|3QJ4|B Chain B, Crystal Structure Of Human Renalase (Isoform 1)
Length = 342
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 18 PVVSPISGSVFEK------------RLIEKYIKENGTDPINAERLTLEQLIDIKVSPVTK 65
P+ SPI G V ++ +I+ Y+KE+G + R+T L D K +
Sbjct: 88 PLSSPIEGMVMKEGDCNFVAPQGISSIIKHYLKESGAEVYFRHRVTQINLRDDKWEVSKQ 147
Query: 66 PKPPQATSIPAIL----KMLQDEWDAIMLHSFTQRQQLQTARQELSHAL 110
P+ + + ++LQ + D L S QRQQL+ +AL
Sbjct: 148 TGSPEQFDLIVLTMPVPEILQLQGDITTLISECQRQQLEAVSYSSRYAL 196
>pdb|1WGM|A Chain A, Solution Structure Of The U-Box In Human Ubiquitin
Conjugation Factor E4a
Length = 98
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 17 HPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQL 55
PVV P S ++ I +++ + TDP N LT++Q+
Sbjct: 34 DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI 72
>pdb|3HDO|A Chain A, Crystal Structure Of A Histidinol-Phosphate
Aminotransferase From Geobacter Metallireducens
pdb|3HDO|B Chain B, Crystal Structure Of A Histidinol-Phosphate
Aminotransferase From Geobacter Metallireducens
Length = 360
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 58 IKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQELSHALYQHDAAC 117
IK++ P PP + AIL+ L + A+ ++ Q+L +E++ LY D +
Sbjct: 29 IKLNTNENPYPPSPEVVKAILEELGPDGAALRIYPSASSQKL----REVAGELYGFDPSW 84
Query: 118 RVIARLTKEV 127
+ A + EV
Sbjct: 85 IIXANGSDEV 94
>pdb|2QJ0|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 27.3 bits (59), Expect = 3.8, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 14 VPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQL 55
+ + PV+ P S ++ I+ ++ + TDP N L LE +
Sbjct: 914 IXKDPVILPASKXNIDRSTIKAHLLSDSTDPFNRXPLKLEDV 955
>pdb|2OXQ|C Chain C, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|D Chain D, Structure Of The Ubch5 :chip U-Box Complex
Length = 80
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENG-TDPINAERLTLEQLI 56
+S E+ P ++P SG ++++ IE++++ G DP+ LT +QLI
Sbjct: 18 ISFELMAEPCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLI 64
>pdb|2C2L|A Chain A, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|B Chain B, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|C Chain C, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|D Chain D, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
Length = 281
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENGT-DPINAERLTLEQLI 56
+S E+ P ++P SG ++++ IE++++ G +P+ LT EQLI
Sbjct: 213 ISFELMREPCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI 259
>pdb|2F42|A Chain A, Dimerization And U-Box Domains Of Zebrafish C-Terminal Of
Hsp70 Interacting Protein
Length = 179
Score = 26.2 bits (56), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENG-TDPINAERLTLEQLI 56
+S E+ P ++P SG ++++ IE++++ G DP+ LT +QLI
Sbjct: 111 ISFELMREPCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLI 157
>pdb|2C2V|S Chain S, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|T Chain T, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|U Chain U, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|V Chain V, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
Length = 78
Score = 26.2 bits (56), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENG-TDPINAERLTLEQLI 56
+S E+ P ++P SG ++++ IE++++ G +P+ LT EQLI
Sbjct: 10 ISFELMREPCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI 56
>pdb|2QIZ|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 26.2 bits (56), Expect = 9.0, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 18 PVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQL 55
PV+ P S ++ I+ ++ + TDP N L LE +
Sbjct: 918 PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDV 955
>pdb|3M62|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
pdb|3M63|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 968
Score = 26.2 bits (56), Expect = 9.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 18 PVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQL 55
PV+ P S ++ I+ ++ + TDP N L LE +
Sbjct: 904 PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDV 941
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
0.318 0.130 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,888,979
Number of Sequences: 62578
Number of extensions: 181036
Number of successful extensions: 413
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 403
Number of HSP's gapped (non-prelim): 17
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
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: 48 (23.1 bits)