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= psy9223
(457 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 = 132 bits (331), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 63/119 (52%), Positives = 78/119 (65%), Gaps = 13/119 (10%)
Query: 96 PCIDDYAKVDLRTVSFDVPPQEVMSKDSVTLHVDAVVYY-------------XXXXXXXX 142
PC D KVD+RT+SFD+PPQEV++KDSVT+ VD VVYY
Sbjct: 1 PCTDSLIKVDMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRL 60
Query: 143 XXXXXXXNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRLPQQLQ 201
N LGT+NL++ILS+RE I+H MQ+ LD AT+ WG+KVERVEIKDV+LP QLQ
Sbjct: 61 LAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 119
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 45/65 (69%), Positives = 56/65 (86%)
Query: 279 NHSTRLLAATTLRNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRL 338
+ +TRLLA TTLRN LGT+NL++ILS+RE I+H MQ+ LD AT+ WG+KVERVEIKDV+L
Sbjct: 55 DSATRLLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKL 114
Query: 339 PQQLQ 343
P QLQ
Sbjct: 115 PVQLQ 119
>pdb|4FVG|A Chain A, Spfh Domain Of Mouse Stomatin (Crystal Form 3)
Length = 133
Score = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 63/119 (52%), Positives = 78/119 (65%), Gaps = 13/119 (10%)
Query: 96 PCIDDYAKVDLRTVSFDVPPQEVMSKDSVTLHVDAVVYY-------------XXXXXXXX 142
P D AKVD+RT+SFD+PPQEV++KDSVT+ VD VVYY
Sbjct: 6 PSTDSAAKVDMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRL 65
Query: 143 XXXXXXXNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRLPQQLQ 201
N LGT+NL++ILS+RE I+H MQ+ LD AT+ WG+KVERVEIKDV+LP QLQ
Sbjct: 66 LAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 124
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 45/65 (69%), Positives = 56/65 (86%)
Query: 279 NHSTRLLAATTLRNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRL 338
+ +TRLLA TTLRN LGT+NL++ILS+RE I+H MQ+ LD AT+ WG+KVERVEIKDV+L
Sbjct: 60 DSATRLLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKL 119
Query: 339 PQQLQ 343
P QLQ
Sbjct: 120 PVQLQ 124
>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 = 127 bits (320), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 62/119 (52%), Positives = 77/119 (64%), Gaps = 13/119 (10%)
Query: 96 PCIDDYAKVDLRTVSFDVPPQEVMSKDSVTLHVDAVVYY-------------XXXXXXXX 142
P D KVD+RT+SFD+PPQEV++KDSVT+ VD VVYY
Sbjct: 6 PSTDSLIKVDMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADSATRL 65
Query: 143 XXXXXXXNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRLPQQLQ 201
N LGT+NL++ILS+RE I+H MQ+ LD AT+ WG+KVERVEIKDV+LP QLQ
Sbjct: 66 LAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPVQLQ 124
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 45/65 (69%), Positives = 56/65 (86%)
Query: 279 NHSTRLLAATTLRNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRL 338
+ +TRLLA TTLRN LGT+NL++ILS+RE I+H MQ+ LD AT+ WG+KVERVEIKDV+L
Sbjct: 60 DSATRLLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKL 119
Query: 339 PQQLQ 343
P QLQ
Sbjct: 120 PVQLQ 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 = 114 bits (285), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 65/172 (37%), Positives = 97/172 (56%), Gaps = 13/172 (7%)
Query: 104 VDLRTVSFDVPPQEVMSKDSVTLHVDAVVYYXXX-------------XXXXXXXXXXXXN 150
VDLRT DVP QE ++KD+V + V+AVVY+ +
Sbjct: 9 VDLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQTTLRS 68
Query: 151 VLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRLPQQLQXXXXXXXXX 210
V+G +L E+LSER+ ++ +Q +D AT+PWG+KV VEIKDV LP +Q
Sbjct: 69 VIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQKAMARQAEA 128
Query: 211 XXXXXXKVIAAEAEMKASRALKEAADVIVESPAALQLRYLQTLNSISQEKNS 262
++ AEAE +A+ L+EAA++I E P ALQLR LQT++ ++ +K++
Sbjct: 129 ERERRARITLAEAERQAAEKLREAAEIISEHPMALQLRTLQTISDVAGDKSN 180
Score = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 59/161 (36%), Positives = 93/161 (57%), Gaps = 18/161 (11%)
Query: 261 NSTIIFPI--PVDIISTFMKNH--STRLLAATTLRNVLGTRNLAEILSERESISHAMQAN 316
N+ + F + PV + T +KN+ +T ++ TTLR+V+G +L E+LSER+ ++ +Q
Sbjct: 34 NAVVYFRVVDPVKAV-TQVKNYIMATSQISQTTLRSVIGQAHLDELLSERDKLNMQLQRI 92
Query: 317 LDHATEPWGVKVERVEIKDVRLPQQLQXXXXXXXXXXXXXXXKVIAAEAEMKASRALKEA 376
+D AT+PWG+KV VEIKDV LP +Q ++ AEAE +A+ L+EA
Sbjct: 93 IDEATDPWGIKVTAVEIKDVELPAGMQKAMARQAEAERERRARITLAEAERQAAEKLREA 152
Query: 377 ADVIVESPAALQKRLQKIQTNYLFQLRYLQTLQSISQEKNS 417
A++I E P AL QLR LQT+ ++ +K++
Sbjct: 153 AEIISEHPMAL-------------QLRTLQTISDVAGDKSN 180
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 40/108 (37%), Positives = 54/108 (50%), Gaps = 13/108 (12%)
Query: 104 VDLRTVSFDVPPQEVMSKDSVTLHVDAVVYYXX-------------XXXXXXXXXXXXXN 150
VDLR DVPPQEV+ KD+V + VDAVVYY
Sbjct: 5 VDLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNLRA 64
Query: 151 VLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRLPQ 198
++G L E LS R+ I+ ++ LD T+ WGVK+ RVEI+ + P+
Sbjct: 65 IIGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDPPK 112
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 35/56 (62%)
Query: 285 LAATTLRNVLGTRNLAEILSERESISHAMQANLDHATEPWGVKVERVEIKDVRLPQ 340
LA T LR ++G L E LS R+ I+ ++ LD T+ WGVK+ RVEI+ + P+
Sbjct: 57 LAQTNLRAIIGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDPPK 112
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 0.133 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,786,169
Number of Sequences: 62578
Number of extensions: 251400
Number of successful extensions: 821
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 801
Number of HSP's gapped (non-prelim): 19
length of query: 457
length of database: 14,973,337
effective HSP length: 102
effective length of query: 355
effective length of database: 8,590,381
effective search space: 3049585255
effective search space used: 3049585255
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: 53 (25.0 bits)