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= psy14362
(422 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FVF|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 1)
pdb|4FVF|B Chain B, Spfh Domain Of Mouse Stomatin (Crystal Form 1)
Length = 128
Score = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 83/119 (69%), Positives = 103/119 (86%)
Query: 242 PCMDSYVCVDLRTRTYDVPPQEVLTKDSVTVSVDAVVYYRVSNATISVANVANAHHSTKL 301
PC DS + VD+RT ++D+PPQEVLTKDSVT+SVD VVYYRV NAT++VAN+ NA +T+L
Sbjct: 1 PCTDSLIKVDMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRL 60
Query: 302 LAQTTLRNVMGTRPLHEILSEREAISNTMQLALDEATEDWGIKVERVEIKDVRLPVQLQ 360
LAQTTLRN +GT+ L +ILS+RE I++ MQ LD+AT+DWGIKVERVEIKDV+LPVQLQ
Sbjct: 61 LAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 119
>pdb|4FVJ|A Chain A, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|B Chain B, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|C Chain C, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|D Chain D, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|E Chain E, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|F Chain F, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|G Chain G, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
pdb|4FVJ|H Chain H, Spfh Domain Of The Mouse Stomatin (Crystal Form 2)
Length = 133
Score = 177 bits (448), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 82/119 (68%), Positives = 102/119 (85%)
Query: 242 PCMDSYVCVDLRTRTYDVPPQEVLTKDSVTVSVDAVVYYRVSNATISVANVANAHHSTKL 301
P DS + VD+RT ++D+PPQEVLTKDSVT+SVD VVYYRV NAT++VAN+ NA +T+L
Sbjct: 6 PSTDSLIKVDMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRL 65
Query: 302 LAQTTLRNVMGTRPLHEILSEREAISNTMQLALDEATEDWGIKVERVEIKDVRLPVQLQ 360
LAQTTLRN +GT+ L +ILS+RE I++ MQ LD+AT+DWGIKVERVEIKDV+LPVQLQ
Sbjct: 66 LAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 124
>pdb|4FVG|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 3)
Length = 133
Score = 176 bits (445), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 82/119 (68%), Positives = 101/119 (84%)
Query: 242 PCMDSYVCVDLRTRTYDVPPQEVLTKDSVTVSVDAVVYYRVSNATISVANVANAHHSTKL 301
P DS VD+RT ++D+PPQEVLTKDSVT+SVD VVYYRV NAT++VAN+ NA +T+L
Sbjct: 6 PSTDSAAKVDMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRL 65
Query: 302 LAQTTLRNVMGTRPLHEILSEREAISNTMQLALDEATEDWGIKVERVEIKDVRLPVQLQ 360
LAQTTLRN +GT+ L +ILS+RE I++ MQ LD+AT+DWGIKVERVEIKDV+LPVQLQ
Sbjct: 66 LAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 124
>pdb|3BK6|A Chain A, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
pdb|3BK6|B Chain B, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
pdb|3BK6|C Chain C, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
Length = 188
Score = 144 bits (363), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 78/166 (46%), Positives = 106/166 (63%)
Query: 245 DSYVCVDLRTRTYDVPPQEVLTKDSVTVSVDAVVYYRVSNATISVANVANAHHSTKLLAQ 304
+ V VDLRT+ DVP QE +TKD+V V V+AVVY+RV + +V V N +T ++Q
Sbjct: 4 EKAVIVDLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQ 63
Query: 305 TTLRNVMGTRPLHEILSEREAISNTMQLALDEATEDWGIKVERVEIKDVRLPVQLQXXXX 364
TTLR+V+G L E+LSER+ ++ +Q +DEAT+ WGIKV VEIKDV LP +Q
Sbjct: 64 TTLRSVIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQKAMA 123
Query: 365 XXXXXXXXXXXKVIAAEGEHKASRALREASEVISDSPAALQLRYLQ 410
++ AE E +A+ LREA+E+IS+ P ALQLR LQ
Sbjct: 124 RQAEAERERRARITLAEAERQAAEKLREAAEIISEHPMALQLRTLQ 169
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/31 (61%), Positives = 24/31 (77%)
Query: 66 AEGEHKASRALREASEVISDSPAALQLRYLQ 96
AE E +A+ LREA+E+IS+ P ALQLR LQ
Sbjct: 139 AEAERQAAEKLREAAEIISEHPMALQLRTLQ 169
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 82.8 bits (203), Expect = 4e-16, Method: Composition-based stats.
Identities = 50/107 (46%), Positives = 71/107 (66%)
Query: 250 VDLRTRTYDVPPQEVLTKDSVTVSVDAVVYYRVSNATISVANVANAHHSTKLLAQTTLRN 309
VDLR DVPPQEV+ KD+V V+VDAVVYY+V + +V NV++ + LAQT LR
Sbjct: 5 VDLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNLRA 64
Query: 310 VMGTRPLHEILSEREAISNTMQLALDEATEDWGIKVERVEIKDVRLP 356
++G L E LS R+ I+ ++ LD+ T+ WG+K+ RVEI+ + P
Sbjct: 65 IIGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDPP 111
>pdb|1EYZ|A Chain A, Structure Of Escherichia Coli Purt-Encoded Glycinamide
Ribonucleotide Transformylase Complexed With Mg And
Amppnp
pdb|1EYZ|B Chain B, Structure Of Escherichia Coli Purt-Encoded Glycinamide
Ribonucleotide Transformylase Complexed With Mg And
Amppnp
pdb|1EZ1|A Chain A, Structure Of Escherichia Coli Purt-Encoded Glycinamide
Ribonucleotide Transformylase Complexed With Mg, Amppnp,
And Gar
pdb|1EZ1|B Chain B, Structure Of Escherichia Coli Purt-Encoded Glycinamide
Ribonucleotide Transformylase Complexed With Mg, Amppnp,
And Gar
Length = 392
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%)
Query: 291 NVANAHHSTKLLAQTTLRNVMGTRPLHEILSEREAISNTMQLALDE 336
+VA+ H +L LR V+ H I+ E EAI+ M + L+E
Sbjct: 51 HVAHRSHVINMLDGDALRRVVELEKPHYIVPEIEAIATDMLIQLEE 96
>pdb|1KJ8|A Chain A, Crystal Structure Of Purt-Encoded Glycinamide
Ribonucleotide Transformylase In Complex With Mg-Atp And
Gar
pdb|1KJ8|B Chain B, Crystal Structure Of Purt-Encoded Glycinamide
Ribonucleotide Transformylase In Complex With Mg-Atp And
Gar
pdb|1KJ9|A Chain A, Crystal Structure Of Purt-Encoded Glycinamide
Ribonucleotide Transformylase Complexed With Mg-Atp
pdb|1KJ9|B Chain B, Crystal Structure Of Purt-Encoded Glycinamide
Ribonucleotide Transformylase Complexed With Mg-Atp
pdb|1KJI|A Chain A, Crystal Structure Of Glycinamide Ribonucleotide
Transformylase In Complex With Mg-Amppcp
pdb|1KJI|B Chain B, Crystal Structure Of Glycinamide Ribonucleotide
Transformylase In Complex With Mg-Amppcp
pdb|1KJJ|A Chain A, Crystal Structure Of Glycniamide Ribonucleotide
Transformylase In Complex With Mg-Atp-Gamma-S
pdb|1KJJ|B Chain B, Crystal Structure Of Glycniamide Ribonucleotide
Transformylase In Complex With Mg-Atp-Gamma-S
pdb|1KJQ|A Chain A, Crystal Structure Of Glycinamide Ribonucleotide
Transformylase In Complex With Mg-Adp
pdb|1KJQ|B Chain B, Crystal Structure Of Glycinamide Ribonucleotide
Transformylase In Complex With Mg-Adp
Length = 391
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%)
Query: 291 NVANAHHSTKLLAQTTLRNVMGTRPLHEILSEREAISNTMQLALDE 336
+VA+ H +L LR V+ H I+ E EAI+ M + L+E
Sbjct: 50 HVAHRSHVINMLDGDALRRVVELEKPHYIVPEIEAIATDMLIQLEE 95
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 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,925,578
Number of Sequences: 62578
Number of extensions: 405592
Number of successful extensions: 921
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 913
Number of HSP's gapped (non-prelim): 10
length of query: 422
length of database: 14,973,337
effective HSP length: 101
effective length of query: 321
effective length of database: 8,652,959
effective search space: 2777599839
effective search space used: 2777599839
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: 53 (25.0 bits)