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= psy10837
(316 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1AUX|A Chain A, Structure Of The C Domain Of Synapsin Ia From Bovine Brain
With Calcium Atp-Gamma-S Bound
pdb|1AUX|B Chain B, Structure Of The C Domain Of Synapsin Ia From Bovine Brain
With Calcium Atp-Gamma-S Bound
Length = 311
Score = 242 bits (618), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 118/220 (53%), Positives = 155/220 (70%), Gaps = 21/220 (9%)
Query: 108 LLVIDDQNTDWSKYFRGRRLHGDYDVRVEQAEFKELSLTANGDLGCVVSMAVFRGGTKVV 167
LLVID+ +TDW+KYF+G+++HG+ D++VEQAEF +L+L A+ + G V M V R G KVV
Sbjct: 7 LLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDMEVLRNGVKVV 66
Query: 168 RSFKPDMILIRQNLRDAGE--DHKNLLLGFNIGGIPSINTLQGVYNFQVPKLVLDKPWVF 225
RS KPD +LIRQ+ D+++L++G GIPSIN+L VYNF DKPWVF
Sbjct: 67 RSLKPDFVLIRQHAFSMARNGDYRSLVIGLQYAGIPSINSLHSVYNF------CDKPWVF 120
Query: 226 AHLLQLQRKLGKENFPLIDITYYPNFKEMVSKMTAPKYPVVFKIGHAHSGFGK------- 278
A +++L +KLG E FPLI+ T+YPN KEM+S T YPVV K+GHAHSG GK
Sbjct: 121 AQMVRLHKKLGTEEFPLINQTFYPNHKEMLSSTT---YPVVVKMGHAHSGMGKVKVDNQH 177
Query: 279 ---DMAGVVAVANTYCTTEPYIDSKFDVHVQKIGSNYKAF 315
D+A VVA+ TY TTEP+ID+K+DV +QKIG NYKA+
Sbjct: 178 DFQDIASVVALTKTYATTEPFIDAKYDVRIQKIGQNYKAY 217
>pdb|1PK8|A Chain A, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|B Chain B, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|C Chain C, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|D Chain D, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|E Chain E, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|F Chain F, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|G Chain G, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PK8|H Chain H, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp
pdb|1PX2|A Chain A, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp (Form 1)
pdb|1PX2|B Chain B, Crystal Structure Of Rat Synapsin I C Domain Complexed To
Ca.Atp (Form 1)
Length = 422
Score = 242 bits (618), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 118/220 (53%), Positives = 154/220 (70%), Gaps = 21/220 (9%)
Query: 108 LLVIDDQNTDWSKYFRGRRLHGDYDVRVEQAEFKELSLTANGDLGCVVSMAVFRGGTKVV 167
LLVID+ +TDW+KYF+G+++HG+ D++VEQAEF +L+L A+ + G V M V R G KVV
Sbjct: 117 LLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDMEVLRNGVKVV 176
Query: 168 RSFKPDMILIRQNLRDAGE--DHKNLLLGFNIGGIPSINTLQGVYNFQVPKLVLDKPWVF 225
RS KPD +LIRQ+ D+++L++G GIPS+N+L VYNF DKPWVF
Sbjct: 177 RSLKPDFVLIRQHAFSMARNGDYRSLVIGLQYAGIPSVNSLHSVYNF------CDKPWVF 230
Query: 226 AHLLQLQRKLGKENFPLIDITYYPNFKEMVSKMTAPKYPVVFKIGHAHSGFGK------- 278
A +++L +KLG E FPLID T+YPN KEM+S T YPVV K+GHAHSG GK
Sbjct: 231 AQMVRLHKKLGTEEFPLIDQTFYPNHKEMLSSTT---YPVVVKMGHAHSGMGKVKVDNQH 287
Query: 279 ---DMAGVVAVANTYCTTEPYIDSKFDVHVQKIGSNYKAF 315
D+A VVA+ TY T EP+ID+K+DV VQKIG NYKA+
Sbjct: 288 DFQDIASVVALTKTYATAEPFIDAKYDVRVQKIGQNYKAY 327
>pdb|1I7L|A Chain A, Crystal Structure Analysis Of The Complex Of The C Domain
Of Synapsin Ii From Rat With Atp
pdb|1I7L|B Chain B, Crystal Structure Analysis Of The Complex Of The C Domain
Of Synapsin Ii From Rat With Atp
pdb|1I7N|A Chain A, Crystal Structure Analysis Of The C Domain Of Synapsin Ii
From Rat Brain
pdb|1I7N|B Chain B, Crystal Structure Analysis Of The C Domain Of Synapsin Ii
From Rat Brain
Length = 309
Score = 238 bits (608), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 116/220 (52%), Positives = 154/220 (70%), Gaps = 21/220 (9%)
Query: 108 LLVIDDQNTDWSKYFRGRRLHGDYDVRVEQAEFKELSLTANGDLGCVVSMAVFRGGTKVV 167
LLV+D+ +TDW+K FRG+++ GDYD++VEQAEF EL+L A+ D V M V R GTKVV
Sbjct: 5 LLVVDEPHTDWAKCFRGKKILGDYDIKVEQAEFSELNLVAHADGTYAVDMQVLRNGTKVV 64
Query: 168 RSFKPDMILIRQNL--RDAGEDHKNLLLGFNIGGIPSINTLQGVYNFQVPKLVLDKPWVF 225
RSF+PD +LIRQ+ ED ++L++G G+PSIN+L+ +YNF DKPWVF
Sbjct: 65 RSFRPDFVLIRQHAFGMAENEDFRHLVIGMQYAGLPSINSLESIYNF------CDKPWVF 118
Query: 226 AHLLQLQRKLGKENFPLIDITYYPNFKEMVSKMTAPKYPVVFKIGHAHSGFGK------- 278
A ++ + + LG E FPLI+ TYYPN +EM +T P +PVV KIGHAHSG GK
Sbjct: 119 AQMVAIFKTLGGEKFPLIEQTYYPNHREM---LTLPTFPVVVKIGHAHSGMGKVKVENHY 175
Query: 279 ---DMAGVVAVANTYCTTEPYIDSKFDVHVQKIGSNYKAF 315
D+A VVA+ TY T EP+ID+K+D+ VQKIG+NYKA+
Sbjct: 176 DFQDIASVVALTQTYATAEPFIDAKYDIRVQKIGNNYKAY 215
>pdb|2P0A|A Chain A, The Crystal Structure Of Human Synapsin Iii (Syn3) In
Complex With Amppnp
pdb|2P0A|B Chain B, The Crystal Structure Of Human Synapsin Iii (Syn3) In
Complex With Amppnp
Length = 344
Score = 236 bits (603), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 117/221 (52%), Positives = 156/221 (70%), Gaps = 22/221 (9%)
Query: 108 LLVIDDQNTDWSKYFRGRRLHGDYDVRVEQAEFKELSLTANGDLGCVVSMAVFRGGTKVV 167
LLVIDD +TDWSKYF G++++G+ ++RVEQAEF EL+L A GC+V M V R GTKVV
Sbjct: 21 LLVIDDAHTDWSKYFHGKKVNGEIEIRVEQAEFSELNLAAYVTGGCMVDMQVVRNGTKVV 80
Query: 168 -RSFKPDMILIRQNLRDA--GEDHKNLLLGFNIGGIPSINTLQGVYNFQVPKLVLDKPWV 224
RSFKPD IL+RQ+ GED+++L++G GG+P++N+L VYNF KPWV
Sbjct: 81 SRSFKPDFILVRQHAYSMALGEDYRSLVIGLQYGGLPAVNSLYSVYNF------CSKPWV 134
Query: 225 FAHLLQLQRKLGKENFPLIDITYYPNFKEMVSKMTAPKYPVVFKIGHAHSGFGK------ 278
F+ L+++ LG E FPL++ T++PN K MV TAP +PVV K+GHAH+G GK
Sbjct: 135 FSQLIKIFHSLGPEKFPLVEQTFFPNHKPMV---TAPHFPVVVKLGHAHAGMGKIKVENQ 191
Query: 279 ----DMAGVVAVANTYCTTEPYIDSKFDVHVQKIGSNYKAF 315
D+ VVA+A TY TTE +IDSK+D+ +QKIGSNYKA+
Sbjct: 192 LDFQDITSVVAMAKTYATTEAFIDSKYDIRIQKIGSNYKAY 232
>pdb|1AUV|A Chain A, Structure Of The C Domain Of Synapsin Ia From Bovine Brain
pdb|1AUV|B Chain B, Structure Of The C Domain Of Synapsin Ia From Bovine Brain
Length = 311
Score = 234 bits (596), Expect = 6e-62, Method: Compositional matrix adjust.
Identities = 116/220 (52%), Positives = 151/220 (68%), Gaps = 21/220 (9%)
Query: 108 LLVIDDQNTDWSKYFRGRRLHGDYDVRVEQAEFKELSLTANGDLGCVVSMAVFRGGTKVV 167
LLVID+ +TDW+KYF+G+++HG+ D++VEQAEF +L+L A+ + G V V R G KVV
Sbjct: 7 LLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDXEVLRNGVKVV 66
Query: 168 RSFKPDMILIRQNLRDAGE--DHKNLLLGFNIGGIPSINTLQGVYNFQVPKLVLDKPWVF 225
RS KPD +LIRQ+ D+++L++G GIPSIN+L VYNF DKPWVF
Sbjct: 67 RSLKPDFVLIRQHAFSXARNGDYRSLVIGLQYAGIPSINSLHSVYNF------CDKPWVF 120
Query: 226 AHLLQLQRKLGKENFPLIDITYYPNFKEMVSKMTAPKYPVVFKIGHAHSGFGK------- 278
A ++L +KLG E FPLI+ T+YPN KE +S T YPVV K GHAHSG GK
Sbjct: 121 AQXVRLHKKLGTEEFPLINQTFYPNHKEXLSSTT---YPVVVKXGHAHSGXGKVKVDNQH 177
Query: 279 ---DMAGVVAVANTYCTTEPYIDSKFDVHVQKIGSNYKAF 315
D+A VVA+ TY TTEP+ID+K+DV +QKIG NYKA+
Sbjct: 178 DFQDIASVVALTKTYATTEPFIDAKYDVRIQKIGQNYKAY 217
>pdb|4II2|A Chain A, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1)
In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg
pdb|4II3|A Chain A, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
pdb|4II3|C Chain C, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
Length = 1001
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 131 YDVRVEQAEFKELSLTANGDLGCVVSMAVFRGG 163
+DV +++ KE+S A GDL V+M+ F GG
Sbjct: 323 FDVELDEKLIKEISYQARGDL---VAMSAFLGG 352
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
0.320 0.136 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,809,793
Number of Sequences: 62578
Number of extensions: 344594
Number of successful extensions: 686
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 660
Number of HSP's gapped (non-prelim): 6
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)