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= 018497
(355 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 = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 61/125 (48%), Gaps = 9/125 (7%)
Query: 8 LPEDVMIDIFLRLEVKNLARLRCVCKSWNTLLTSKTFVEIHLNQSMRNPRPLLFRHGISP 67
LP+++++ IF L + L ++ VCK W L + ++ + L+ + +N P + +S
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQT-LDLTGKNLHPDVTGRLLSQ 70
Query: 68 SYLGFYSTKCKEFEDLCD--PPFRTQLADLD----VVGSCNGVLCFCSNGSDRSL--IYL 119
+ F + + L + PFR Q DL V + +G+L CS + SL + L
Sbjct: 71 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRL 130
Query: 120 WNPLI 124
+P++
Sbjct: 131 SDPIV 135
>pdb|3APR|E Chain E, Binding Of A Reduced Peptide Inhibitor To The Aspartic
Proteinase From Rhizopus Chinensis. Implications For A
Mechanism Of Action
pdb|4APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
And Other Statine-Containing Inhibitors
pdb|5APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
And Other Statine-Containing Inhibitors
pdb|6APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
And Other Statine-Containing Inhibitors
pdb|2APR|A Chain A, Structure And Refinement At 1.8 Angstroms Resolution Of
The Aspartic Proteinase From Rhizopus Chinensis
Length = 325
Score = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 48/130 (36%), Gaps = 27/130 (20%)
Query: 204 DNSCPWLIVSFDFAKEIFQTVMMPYDLSTDDADKYLNVFDGYLCVFATIPNNTFRSYELW 263
DNS W ++ D A TV +D D L +PNN S
Sbjct: 189 DNSRGWWGITVDRATVGTSTVASSFDGILDTGTTLL-----------ILPNNIAAS---- 233
Query: 264 VMKEYGLTESWTKLYTIEKPQRIWWPLGFTERGKIF-----------IRGECRHG-GYGL 311
V + YG +++ YTI + PL F+ G F +G+C G GYG
Sbjct: 234 VARAYGASDNGDGTYTISCDTSAFKPLVFSINGASFQVSPDSLVFEEFQGQCIAGFGYGN 293
Query: 312 LVYNPHSDTF 321
+ DTF
Sbjct: 294 WGFAIIGDTF 303
>pdb|2VXV|L Chain L, Crystal Structure Of Human Igg Abt-325 Fab Fragment
Length = 214
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 152 DDFKVVYSLRSNSWKNIAYGFPRSIEINRSHINSSVFL 189
+DF V Y + N+W +I +G +EI R+ SVF+
Sbjct: 81 EDFAVYYCQQYNNWPSITFGQGTRLEIKRTVAAPSVFI 118
>pdb|1UH7|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 4.6
pdb|1UH8|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 8.0
pdb|1UH9|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 7.0
Length = 325
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 48/130 (36%), Gaps = 27/130 (20%)
Query: 204 DNSCPWLIVSFDFAKEIFQTVMMPYDLSTDDADKYLNVFDGYLCVFATIPNNTFRSYELW 263
DNS W ++ D A TV +D D L +PNN S
Sbjct: 189 DNSRGWWGITVDRATVGTSTVASSFDGILDTGTTLL-----------ILPNNIAAS---- 233
Query: 264 VMKEYGLTESWTKLYTIEKPQRIWWPLGFTERGKIF-----------IRGECRHG-GYGL 311
V + YG +++ YTI + PL F+ G F +G+C G GYG
Sbjct: 234 VARAYGASDNGDGTYTISCDTSRFKPLVFSINGASFQVSPDSLVFEEFQGQCIAGFGYGN 293
Query: 312 LVYNPHSDTF 321
+ DTF
Sbjct: 294 WDFAIIGDTF 303
>pdb|3EYQ|C Chain C, Crystal Structure Of Mj5 Fab, A Germline Antibody Variant
Of Anti-Human Cytomegalovirus Antibody 8f9
Length = 216
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 152 DDFKVVYSLRSNSWKNIAYGFPRSIEINRSHINSSVFL 189
+DF V Y + ++W I +G +EI R+ SVF+
Sbjct: 82 EDFAVYYCQQRSNWPPITFGQGTRLEIKRTVAAPSVFI 119
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
0.325 0.141 0.463
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,417,179
Number of Sequences: 62578
Number of extensions: 503086
Number of successful extensions: 1196
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1194
Number of HSP's gapped (non-prelim): 6
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)