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= 026356
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 21/112 (18%)
Query: 79 DLESLNLNGCQKISDKGIEIISSTCPELKVFSIYWNVRVTDIGIQHLVKNCKH-IIDLNL 137
+L LNL+GC S+ ++ + S+C L ++ W T+ +Q V + I LNL
Sbjct: 143 NLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNL 202
Query: 138 SG----------------CKNL----LDKSLQLIADNYQELESLNLTRYVNM 169
SG C NL L S+ L D +QE LN +++++
Sbjct: 203 SGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSL 254
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 21/112 (18%)
Query: 79 DLESLNLNGCQKISDKGIEIISSTCPELKVFSIYWNVRVTDIGIQHLVKNCKH-IIDLNL 137
+L LNL+GC S+ ++ + S+C L ++ W T+ +Q V + I LNL
Sbjct: 105 NLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNL 164
Query: 138 SG----------------CKNL----LDKSLQLIADNYQELESLNLTRYVNM 169
SG C NL L S+ L D +QE LN +++++
Sbjct: 165 SGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSL 216
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 42/84 (50%), Gaps = 14/84 (16%)
Query: 91 ISDKGIEIISSTCPELKVFSIY--------WNVRVTDIGIQHLVKNCKHIIDLNLSGCKN 142
I D G+E+++STC +L+ ++ NV +T+ G+ + C + + L C+
Sbjct: 325 IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCRQ 383
Query: 143 LLDKSLQLIADNYQELESLNLTRY 166
+ + +L IA N N+TR+
Sbjct: 384 MTNAALITIARNRP-----NMTRF 402
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 59/130 (45%), Gaps = 16/130 (12%)
Query: 47 YRHVREINLEFAQDIEDRHLELLKTKCLGSLQDLESLNLNGCQKISDKGIEIISSTCPEL 106
Y + EI L+ + D LEL+ S ++ + L L+ C+ S G+ I++TC L
Sbjct: 104 YTWLEEIRLK-RMVVTDDCLELIAK----SFKNFKVLVLSSCEGFSTDGLAAIAATCRNL 158
Query: 107 KVFSIYWNVRVTDIG------IQHLVKNCKHIIDLNLSGCKNLLD-KSLQLIADNYQELE 159
K ++R +D+ + H ++ LN+S + + +L+ + L+
Sbjct: 159 KEL----DLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLK 214
Query: 160 SLNLTRYVNM 169
SL L R V +
Sbjct: 215 SLKLNRAVPL 224
>pdb|1Y9O|A Chain A, 1h Nmr Structure Of Acylphosphatase From The
Hyperthermophile Sulfolobus Solfataricus
Length = 103
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 117 VTDIGIQHLVKNCKHIIDLNLSG-CKNLLDKSLQLIADNYQELESLNLTR 165
V +G + V+ H I L + G KNL D S++++A+ Y+E S L R
Sbjct: 26 VQGVGFRKFVQI--HAIRLGIKGYAKNLPDGSVEVVAEGYEEALSKLLER 73
>pdb|2BJD|A Chain A, Sulfolobus Solfataricus Acylphosphatase. Triclinic Space
Group
pdb|2BJD|B Chain B, Sulfolobus Solfataricus Acylphosphatase. Triclinic Space
Group
pdb|2BJE|A Chain A, Acylphosphatase From Sulfolobus Solfataricus. Monclinic
P21 Space Group
pdb|2BJE|C Chain C, Acylphosphatase From Sulfolobus Solfataricus. Monclinic
P21 Space Group
pdb|2BJE|E Chain E, Acylphosphatase From Sulfolobus Solfataricus. Monclinic
P21 Space Group
pdb|2BJE|G Chain G, Acylphosphatase From Sulfolobus Solfataricus. Monclinic
P21 Space Group
Length = 101
Score = 30.4 bits (67), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 117 VTDIGIQHLVKNCKHIIDLNLSG-CKNLLDKSLQLIADNYQELESLNLTR 165
V +G + V+ H I L + G KNL D S++++A+ Y+E S L R
Sbjct: 24 VQGVGFRKFVQI--HAIRLGIKGYAKNLPDGSVEVVAEGYEEALSKLLER 71
>pdb|3OGK|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|B Chain B, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|D Chain D, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|F Chain F, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|H Chain H, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|J Chain J, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|L Chain L, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|N Chain N, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|P Chain P, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
Length = 592
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 38/68 (55%), Gaps = 7/68 (10%)
Query: 44 IPRYRHVREINLEFAQDIEDRHLELLKTKCLGSLQDLESLNLNGCQKISDKGIEIISSTC 103
P +R+++L +A + H L++ KC +L+ LE+ N+ I D+G+E+++ C
Sbjct: 289 FPFAAQIRKLDLLYALLETEDHCTLIQ-KC-PNLEVLETRNV-----IGDRGLEVLAQYC 341
Query: 104 PELKVFSI 111
+LK I
Sbjct: 342 KQLKRLRI 349
>pdb|2DC4|A Chain A, Structure Of Ph1012 Protein From Pyrococcus Horikoshii Ot3
pdb|2DC4|B Chain B, Structure Of Ph1012 Protein From Pyrococcus Horikoshii Ot3
Length = 165
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 45/105 (42%), Gaps = 14/105 (13%)
Query: 23 PKVIDLREMNNAGNRLVAALSIPRYRHVREINLEFAQDIEDRHLELLKT---KCLGSLQD 79
PK++ +R++NN G + I R+ LEF + +EL K K G ++
Sbjct: 41 PKLLRVRKINNTGKSYITYKEILDKRNEEFYELEFEVQDPEGAIELFKRLGFKVQGVVKK 100
Query: 80 LE--------SLNLNGCQKISDK-GIEIISSTCPELKVFSIYWNV 115
+ LN +K D IE+I+S E K I W+V
Sbjct: 101 RRWIYKLNNVTFELNRVEKAGDFLDIEVITSNPEEGK--KIIWDV 143
>pdb|2IN5|A Chain A, Crystal Structure Of The Hypothetical Lipoprotein Ymcc
From Escherichia Coli (K12), Northeast Structural
Genomics Target Er552.
pdb|2IN5|B Chain B, Crystal Structure Of The Hypothetical Lipoprotein Ymcc
From Escherichia Coli (K12), Northeast Structural
Genomics Target Er552
Length = 207
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 7/89 (7%)
Query: 27 DLREMNNAG-NRLVAALSIPR-YRHVREINLEFAQDIEDRHLELLKTKCLGSLQDLESLN 84
+L E+ N+G + L AL+I R R+I ED H S LE+LN
Sbjct: 85 NLLEVTNSGQDPLRNALAIKDGSRWTRDILWS-----EDNHFRSATLSSTFSFAGLETLN 139
Query: 85 LNGCQKISDKGIEIISSTCPELKVFSIYW 113
+ G + + E ++ST PE + + +W
Sbjct: 140 IAGRNVLCNVWQEEVTSTRPEKQWQNTFW 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
0.321 0.138 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,427,397
Number of Sequences: 62578
Number of extensions: 244570
Number of successful extensions: 679
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 667
Number of HSP's gapped (non-prelim): 15
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
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: 50 (23.9 bits)