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= psy8906
(180 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PZD|A Chain A, Structure Of The Myosin X Myth4-FermDCC COMPLEX
Length = 511
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 55/150 (36%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 10 LLTELYLQLIKQTTDHPDPNSRVNLRHWALL-CLACSVVLPAHRLVRKYLVAHLKRCSSD 68
L ELY QLIKQT P P S NL W +L CL+C+ LP+ R + KYL HLKR
Sbjct: 102 LRDELYCQLIKQTNKVPHPGSVGNLYSWQILTCLSCT-FLPS-RGILKYLKFHLKRIREQ 159
Query: 69 CV-SEEGKYARFAEKCVLKTQGTRRRQWPPSREEILCTINRRPIYARFYFMDGSYHAVEF 127
SE KYA F + + K T+ R++ PSR+EI I+R+ + + Y G +
Sbjct: 160 FPGSEMEKYALFTYESLKK---TKCREFVPSRDEIEALIHRQEMTSTVYCHGGGSCKITI 216
Query: 128 HPSATARDAVALIRAKLGLRDGALGYAIYE 157
+ TA + V + L + D +A++E
Sbjct: 217 NSHTTAGEVVEKLIRGLAMEDSRNMFALFE 246
>pdb|3AU4|A Chain A, Structure Of The Human Myosin-X Myth4-Ferm Cassette Bound
To Its Specific Cargo, Dcc
pdb|3AU5|A Chain A, Structure Of The Human Myosin-X Myth4-Ferm Cassette
pdb|3AU5|B Chain B, Structure Of The Human Myosin-X Myth4-Ferm Cassette
Length = 555
Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 54/150 (36%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 10 LLTELYLQLIKQTTDHPDPNSRVNLRHWALL-CLACSVVLPAHRLVRKYLVAHLKRCSSD 68
L ELY QLIKQT P P S NL W +L CL+C+ LP+ R + KYL HLKR
Sbjct: 119 LRDELYCQLIKQTNKVPHPGSVGNLYSWQILTCLSCT-FLPS-RGILKYLKFHLKRIREQ 176
Query: 69 CV-SEEGKYARFAEKCVLKTQGTRRRQWPPSREEILCTINRRPIYARFYFMDGSYHAVEF 127
+E KYA F + + K T+ R++ PSR+EI I+R+ + + Y G +
Sbjct: 177 FPGTEMEKYALFTYESLKK---TKCREFVPSRDEIEALIHRQEMTSTVYCHGGGSCKITI 233
Query: 128 HPSATARDAVALIRAKLGLRDGALGYAIYE 157
+ TA + V + L + D +A++E
Sbjct: 234 NSHTTAGEVVEKLIRGLAMEDSRNMFALFE 263
>pdb|3PVL|A Chain A, Structure Of Myosin Viia Myth4-Ferm-Sh3 In Complex With
The Cen1 Of Sans
Length = 655
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 45/159 (28%), Positives = 74/159 (46%), Gaps = 16/159 (10%)
Query: 9 SLLTELYLQLIKQTTDHPDPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAHLKRCSSD 68
+L E+Y Q+ KQ T +P +S R W L+ L P+ + V KYL +
Sbjct: 172 ALRDEIYCQISKQLTHNPSKSSYA--RGWILVSLCVGCFAPSEKFV-KYLRNFIHGGPP- 227
Query: 69 CVSEEGKYARFAEKCVLKTQGTRRRQWPPSREEILCTINRRPIYARFYFMDGSYHAVEFH 128
YA + E+ + +T R PPS E+ T +++PI FMDG+ +
Sbjct: 228 ------GYAPYCEERLRRTFVNGTRTQPPSWLELQATKSKKPIMLPVTFMDGTTKTLLTD 281
Query: 129 PSATARDAVALIRAKLGLRDGALGYAIY-----EVGTLG 162
+ TAR+ + K+ L+D G+++Y +V +LG
Sbjct: 282 SATTARELCNALADKISLKD-RFGFSLYIALFDKVSSLG 319
>pdb|2GEN|A Chain A, Structural Genomics, The Crystal Structure Of A Probable
Transcriptional Regulator From Pseudomonas Aeruginosa
Pao1
Length = 197
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 41 CLACSVVLPAHRLVRKYLVAHLKRCSSDC 69
C A V+ PAH L R++L + +DC
Sbjct: 152 CFASVVIGPAHDLARQWLAGRTRVALADC 180
>pdb|2OSA|A Chain A, The Rho-Gap Domain Of Human N-Chimaerin
Length = 202
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 5/40 (12%)
Query: 27 DPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAHLKRCS 66
DP+ ++ H AL L PAH +YL+AHLKR +
Sbjct: 114 DPDEQLETLHEALKLLP-----PAHCETLRYLMAHLKRVT 148
>pdb|3CXL|A Chain A, Crystal Structure Of Human Chimerin 1 (Chn1)
Length = 463
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 5/40 (12%)
Query: 27 DPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAHLKRCS 66
DP+ ++ H AL L PAH +YL+AHLKR +
Sbjct: 375 DPDEQLETLHEALKLLP-----PAHCETLRYLMAHLKRVT 409
>pdb|4GUD|A Chain A, Crystal Structure Of Amidotransferase Hish From Vibrio
Cholerae
pdb|4GUD|B Chain B, Crystal Structure Of Amidotransferase Hish From Vibrio
Cholerae
Length = 211
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 120 GSYHAVEFHPSATARDAVALIRAKLGLR 147
G+Y+ V+FHP +++ LI+ L LR
Sbjct: 177 GNYYGVQFHPERSSKAGARLIQNFLELR 204
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 0.139 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,307,424
Number of Sequences: 62578
Number of extensions: 200365
Number of successful extensions: 685
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 676
Number of HSP's gapped (non-prelim): 9
length of query: 180
length of database: 14,973,337
effective HSP length: 93
effective length of query: 87
effective length of database: 9,153,583
effective search space: 796361721
effective search space used: 796361721
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: 48 (23.1 bits)