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= psy401
(326 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4E0Q|A Chain A, Crystal Structure Of Mpn Domain From Cop9 Signalosome
pdb|4E0Q|B Chain B, Crystal Structure Of Mpn Domain From Cop9 Signalosome
Length = 141
Score = 171 bits (434), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 84/141 (59%), Positives = 104/141 (73%), Gaps = 1/141 (0%)
Query: 32 GVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI 91
G S+ +SLHPLVI NISEH+TR RAQ G+P QV GALIG Q GR +EI NSFEL ++
Sbjct: 1 GSHXSVTISLHPLVIXNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIXNSFELKTDV 60
Query: 92 IEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLK 151
I DE +IN+DYY KE+Q+KQVF DLDF+GWYTTGD DIK+ +QI INE PI L+
Sbjct: 61 IGDETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDNPTADDIKIQRQIAAINECPIXLQ 120
Query: 152 LNPHPIH-SNLPVSVYESIID 171
LNP +LP+ ++ES+ID
Sbjct: 121 LNPLSRSVDHLPLKLFESLID 141
>pdb|4B4T|U Chain U, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 338
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 68/240 (28%), Positives = 124/240 (51%), Gaps = 12/240 (5%)
Query: 39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE---DE 95
V++ PLV+++ +HY R + +E K + +G ++G + + NSF L + E D
Sbjct: 8 VTIAPLVLLSALDHYERTQTKENK--RCVGVILGDANSSTIRVTNSFALPFEEDEKNSDV 65
Query: 96 MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINES-PIFLKLNP 154
++ +Y E K++ +GWY +G + D+K+++ + ++ P+ L ++
Sbjct: 66 WFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLLLIVDV 125
Query: 155 HPIHSNLPVSVYESI--IDLVGGEATMLFIELPYTIITEEAERMGVDHVAR-MSNNDSGE 211
LP Y +I + G F+ LP TI EEAE +GV+H+ R + + +G
Sbjct: 126 KQQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRDVRDQAAGG 185
Query: 212 SSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNP 271
S+ LT Q ++K L ++K +++YL +V + LP+NH IL +L + + LP L P
Sbjct: 186 LSI---RLTNQLKSLKGLQSKLKDVVEYLDKVINKELPINHTILGKLQDVFNLLPNLGTP 242
>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
pdb|2O95|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
Length = 187
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 70/136 (51%), Gaps = 8/136 (5%)
Query: 39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE--- 95
V +HPLV++++ +H+ R + G +V+G L+G + L++ NSF + ++ ED+
Sbjct: 10 VVVHPLVLLSVVDHFNRI-GKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFD--EDDKDD 66
Query: 96 --MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLN 153
++ DY FK+V +GWY TG +++ DI +++ + + + + ++
Sbjct: 67 SVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIID 126
Query: 154 PHPIHSNLPVSVYESI 169
P LP Y S+
Sbjct: 127 VKPKDLGLPTEAYISV 142
>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
pdb|2O96|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
Length = 178
Score = 54.3 bits (129), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 70/136 (51%), Gaps = 8/136 (5%)
Query: 39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE--- 95
V +HPLV++++ +H+ R + G +V+G L+G + L++ NSF + ++ ED+
Sbjct: 10 VVVHPLVLLSVVDHFNRI-GKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFD--EDDKDD 66
Query: 96 --MIINRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLN 153
++ DY FK+V +GWY TG +++ DI +++ + + + + ++
Sbjct: 67 SVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIID 126
Query: 154 PHPIHSNLPVSVYESI 169
P LP Y S+
Sbjct: 127 VKPKDLGLPTEAYISV 142
>pdb|3QIK|A Chain A, Crystal Structure Of The First Pdz Domain Of Prex1
Length = 101
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 27/99 (27%), Positives = 45/99 (45%), Gaps = 18/99 (18%)
Query: 76 GRKLEIKNSFELVYNIIEDEMII---NRDYYTLKEEQFKQVFCDLDFLGWYTTGDTVNEL 132
G+ +++N F+LV NI+ ++I DY EE+ K V + G
Sbjct: 1 GKNKQLRNDFKLVENILAKRLLILPQEEDYGFDIEEKNKAV-----VVKSVQRGSLAEVA 55
Query: 133 DIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIID 171
++V ++I INE +FL+ P S ESI++
Sbjct: 56 GLQVGRKIYSINEDLVFLR----------PFSEVESILN 84
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 0.139 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,311,297
Number of Sequences: 62578
Number of extensions: 389655
Number of successful extensions: 996
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 983
Number of HSP's gapped (non-prelim): 5
length of query: 326
length of database: 14,973,337
effective HSP length: 99
effective length of query: 227
effective length of database: 8,778,115
effective search space: 1992632105
effective search space used: 1992632105
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: 51 (24.3 bits)