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= psy15984
(68 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 30.4 bits (67), Expect = 0.27, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 2 SLSKVTYVW--EHLDVGYMQGMCDLVAPIL 29
SL ++ Y+W H GY+QG+ DLV P
Sbjct: 112 SLQRILYLWAIRHPASGYVQGINDLVTPFF 141
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 30.4 bits (67), Expect = 0.27, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 2 SLSKVTYVW--EHLDVGYMQGMCDLVAPIL 29
SL ++ Y+W H GY+QG+ DLV P
Sbjct: 132 SLQRILYLWAIRHPASGYVQGINDLVTPFF 161
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 29.6 bits (65), Expect = 0.42, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 3 LSKVTYVW--EHLDVGYMQGMCDLVAPILVILDDE 35
++ ++W H GY+QG+ DLV P V+ E
Sbjct: 132 FERILFIWAIRHPASGYVQGINDLVTPFFVVFLSE 166
>pdb|2QFZ|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 22a
pdb|2QFZ|B Chain B, Crystal Structure Of Human Tbc1 Domain Family Member 22a
Length = 345
Score = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 3 LSKVTYVW--EHLDVGYMQGMCDLVAPILVIL 32
++ ++W H GY+QG+ DLV P V+
Sbjct: 130 FERILFIWAIRHPASGYVQGINDLVTPFFVVF 161
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 29.3 bits (64), Expect = 0.64, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 14 DVGYMQGMCDLVAPILVILDDESLTYSCFCCLMDR--MAANFPTTGGVMDNHFA 65
DVGY+QGM +A +L++ D + + F L+++ A F G+M +FA
Sbjct: 150 DVGYVQGM-SFIAAVLILNLDTADAFIAFSNLLNKPCQMAFFRVDHGLMLTYFA 202
>pdb|1ZGP|A Chain A, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant K70m
pdb|1ZGP|B Chain B, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant K70m
pdb|1ZGP|C Chain C, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant K70m
pdb|1ZGP|D Chain D, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant K70m
Length = 223
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 28 ILVILDDESLTYSCFCCLMDRMAANFPTTGGVM 60
++ + D SL CF + + NFP+ G VM
Sbjct: 102 VVTVTQDSSLQDGCFIYKVKFIGVNFPSDGPVM 134
>pdb|1GGX|A Chain A, Red Fluorescent Protein (Fp583 Or Dsred(Clontech)) From
Discosoma Sp.
pdb|1GGX|B Chain B, Red Fluorescent Protein (Fp583 Or Dsred(Clontech)) From
Discosoma Sp.
pdb|1GGX|C Chain C, Red Fluorescent Protein (Fp583 Or Dsred(Clontech)) From
Discosoma Sp.
pdb|1GGX|D Chain D, Red Fluorescent Protein (Fp583 Or Dsred(Clontech)) From
Discosoma Sp.
pdb|1ZGO|A Chain A, High Resolution Crystal Structure Of The Discosoma Red
Fluorescent Protein (Dsred)
pdb|1ZGO|B Chain B, High Resolution Crystal Structure Of The Discosoma Red
Fluorescent Protein (Dsred)
pdb|1ZGO|C Chain C, High Resolution Crystal Structure Of The Discosoma Red
Fluorescent Protein (Dsred)
pdb|1ZGO|D Chain D, High Resolution Crystal Structure Of The Discosoma Red
Fluorescent Protein (Dsred)
pdb|1ZGQ|A Chain A, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|B Chain B, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|C Chain C, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|D Chain D, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|E Chain E, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|F Chain F, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|G Chain G, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
pdb|1ZGQ|H Chain H, Crystal Structure Of The Discosoma Red Fluorescent Protein
(Dsred) Variant Q66m
Length = 223
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 28 ILVILDDESLTYSCFCCLMDRMAANFPTTGGVM 60
++ + D SL CF + + NFP+ G VM
Sbjct: 102 VVTVTQDSSLQDGCFIYKVKFIGVNFPSDGPVM 134
>pdb|2VAE|A Chain A, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|B Chain B, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|C Chain C, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|D Chain D, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|E Chain E, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|F Chain F, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|G Chain G, Fast Maturing Red Fluorescent Protein, Dsred.T4
pdb|2VAE|H Chain H, Fast Maturing Red Fluorescent Protein, Dsred.T4
Length = 223
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 28 ILVILDDESLTYSCFCCLMDRMAANFPTTGGVM 60
++ + D SL CF + + NFP+ G VM
Sbjct: 102 VVTVTQDSSLQDGCFIYKVKFIGVNFPSDGPVM 134
>pdb|2H8Q|A Chain A, Crystal Structure Of A Redshifted Mutant (K83m) Of The Red
Fluorescent Protein Drfp583DSRED
pdb|2H8Q|B Chain B, Crystal Structure Of A Redshifted Mutant (K83m) Of The Red
Fluorescent Protein Drfp583DSRED
pdb|2H8Q|C Chain C, Crystal Structure Of A Redshifted Mutant (K83m) Of The Red
Fluorescent Protein Drfp583DSRED
pdb|2H8Q|D Chain D, Crystal Structure Of A Redshifted Mutant (K83m) Of The Red
Fluorescent Protein Drfp583DSRED
Length = 217
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 28 ILVILDDESLTYSCFCCLMDRMAANFPTTGGVM 60
++ + D SL CF + + NFP+ G VM
Sbjct: 96 VVTVTQDSSLQDGCFIYKVKFIGVNFPSDGPVM 128
>pdb|3LS3|A Chain A, Padron0.9-On (Fluorescent State)
pdb|3LS3|B Chain B, Padron0.9-On (Fluorescent State)
pdb|3LS3|C Chain C, Padron0.9-On (Fluorescent State)
pdb|3LS3|D Chain D, Padron0.9-On (Fluorescent State)
pdb|3LSA|A Chain A, Padron0.9-Off (Non-Fluorescent State)
pdb|3LSA|B Chain B, Padron0.9-Off (Non-Fluorescent State)
pdb|3LSA|C Chain C, Padron0.9-Off (Non-Fluorescent State)
pdb|3LSA|D Chain D, Padron0.9-Off (Non-Fluorescent State)
Length = 235
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 22/53 (41%), Gaps = 7/53 (13%)
Query: 8 YVWEHLDVGYMQGMCDLVAPILVILDDESLTYSCFCCLMDRMAANFPTTGGVM 60
Y WE + G+C+ +D +L C+ C + NFP G VM
Sbjct: 98 YSWERSMIYEDGGICNAT-------NDITLDGDCYICEIRFDGVNFPANGPVM 143
>pdb|1PKG|A Chain A, Structure Of A C-kit Kinase Product Complex
pdb|1PKG|B Chain B, Structure Of A C-kit Kinase Product Complex
Length = 329
Score = 25.4 bits (54), Expect = 8.3, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 3 LSKVTYVWEHLDVGYMQGMCDLVAPILVILDDESLTYSCFCCLMD 47
L ++Y+ H+++ + G C + P LVI + +CC D
Sbjct: 93 LKVLSYLGNHMNIVNLLGACTIGGPTLVITE--------YCCYGD 129
>pdb|3G0F|A Chain A, Kit Kinase Domain Mutant D816h In Complex With Sunitinib
pdb|3G0F|B Chain B, Kit Kinase Domain Mutant D816h In Complex With Sunitinib
Length = 336
Score = 25.4 bits (54), Expect = 8.4, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 3 LSKVTYVWEHLDVGYMQGMCDLVAPILVILDDESLTYSCFCCLMD 47
L ++Y+ H+++ + G C + P LVI + +CC D
Sbjct: 100 LKVLSYLGNHMNIVNLLGACTIGGPTLVITE--------YCCYGD 136
>pdb|3G0E|A Chain A, Kit Kinase Domain In Complex With Sunitinib
Length = 336
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 3 LSKVTYVWEHLDVGYMQGMCDLVAPILVILDDESLTYSCFCCLMD 47
L ++Y+ H+++ + G C + P LVI + +CC D
Sbjct: 100 LKVLSYLGNHMNIVNLLGACTIGGPTLVITE--------YCCYGD 136
>pdb|1T45|A Chain A, Structural Basis For The Autoinhibition And Sti-571
Inhibition Of C- Kit Tyrosine Kinase
Length = 331
Score = 25.4 bits (54), Expect = 8.8, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 3 LSKVTYVWEHLDVGYMQGMCDLVAPILVILDDESLTYSCFCCLMD 47
L ++Y+ H+++ + G C + P LVI + +CC D
Sbjct: 95 LKVLSYLGNHMNIVNLLGACTIGGPTLVITE--------YCCYGD 131
>pdb|1T46|A Chain A, Structural Basis For The Autoinhibition And Sti-571
Inhibition Of C-kit Tyrosine Kinase
Length = 313
Score = 25.0 bits (53), Expect = 9.9, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 3 LSKVTYVWEHLDVGYMQGMCDLVAPILVILDDESLTYSCFCCLMD 47
L ++Y+ H+++ + G C + P LVI + +CC D
Sbjct: 77 LKVLSYLGNHMNIVNLLGACTIGGPTLVITE--------YCCYGD 113
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
0.329 0.139 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,973,122
Number of Sequences: 62578
Number of extensions: 57337
Number of successful extensions: 139
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 135
Number of HSP's gapped (non-prelim): 15
length of query: 68
length of database: 14,973,337
effective HSP length: 38
effective length of query: 30
effective length of database: 12,595,373
effective search space: 377861190
effective search space used: 377861190
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)