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= 048384
(538 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 63/144 (43%), Gaps = 28/144 (19%)
Query: 332 LVAILEAYALYDPEIGYCQGMSDLLSPI-----------------------TAVITE--- 365
L IL +A+ P GY QG++DL++P T ++ E
Sbjct: 133 LQRILYLWAIRHPASGYVQGINDLVTPFFETFLTEYLPPSQIDDVKIKDPSTYMVDEQIT 192
Query: 366 DHEA--FWCFVGFMKKARHNFRLDEVGIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFF 423
D EA FWC +++ N+ + GI RQ+ +S+++K D+ LY H + E F
Sbjct: 193 DLEADTFWCLTKLLEQITDNYIHGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQF 252
Query: 424 VYRMVVVLFRRELSFEQTLCLWEV 447
+R + L RE + +W+
Sbjct: 253 AFRWMNCLLMREFQMGTVIRMWDT 276
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 46/224 (20%), Positives = 91/224 (40%), Gaps = 45/224 (20%)
Query: 335 ILEAYALYDPEIGYCQGMSDLLSPITAVITEDH-----------------------EAFW 371
IL +A+ P GY QG++DL++P V ++ ++FW
Sbjct: 135 ILFIWAIRHPASGYVQGINDLVTPFFVVFLSEYVEEDVENFDVTNLSQDMLRSIEADSFW 194
Query: 372 CFVGFMKKARHNFRLDEVGIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFFVYRMVVVL 431
C + + N+ + GI++++ + +++ D ++ H + + E F +R + L
Sbjct: 195 CMSKLLDGIQDNYTFAQPGIQKKVKALEELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNL 254
Query: 432 FRRELSFEQTLCLWEVMWADQAAIRAGIGKSAWSRIRQRAPPTDDLLLYAIAASVLKRRK 491
REL T+ LW+ ++ LY AA ++K RK
Sbjct: 255 LMRELPLRCTIRLWDTYQSEPEGF-------------------SHFHLYVCAAFLIKWRK 295
Query: 492 LII--EKYSSMDEILRECNSMA-GQLDVWKLLDDAHDLVVTLHD 532
I+ E + + +L+ ++ G ++ LL +A+ L D
Sbjct: 296 EILDEEDFQGLLMLLQNLPTIHWGNEEIGLLLAEAYRLKYMFAD 339
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 36/172 (20%), Positives = 67/172 (38%), Gaps = 28/172 (16%)
Query: 332 LVAILEAYALYDPEIGYCQGMSDLLSPITAVITEDH------------------------ 367
L IL +A+ P GY QG++DL++P ++
Sbjct: 113 LQRILYLWAIRHPASGYVQGINDLVTPFFETFLTEYLPPSQIDDVEIKDPSTYXVDEQIT 172
Query: 368 ----EAFWCFVGFMKKARHNFRLDEVGIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFF 423
+ FWC +++ N+ + GI RQ+ +S+++K D+ LY H + E F
Sbjct: 173 DLEADTFWCLTKLLEQITDNYIHGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQF 232
Query: 424 VYRMVVVLFRRELSFEQTLCLWEVMWADQAAIRAGIGKSAWSRIRQRAPPTD 475
+R L RE + W+ ++ + + + I+ PT+
Sbjct: 233 AFRWXNCLLXREFQXGTVIRXWDTYLSETSQEVTSSYSXSSNDIKPPVTPTE 284
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/137 (21%), Positives = 61/137 (44%), Gaps = 24/137 (17%)
Query: 335 ILEAYALYDPEIGYCQGMSDLLSPITAVITEDH------------------------EAF 370
IL +A+ P GY QG++DL++P V ++ + +
Sbjct: 133 ILFIWAIRHPASGYVQGINDLVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTY 192
Query: 371 WCFVGFMKKARHNFRLDEVGIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFFVYRMVVV 430
WC + + N+ + GI+ ++ ++ +++ D ++RHL++ + F +R +
Sbjct: 193 WCMSKLLDGIQDNYTFAQPGIQMKVKMLEELVSRIDEQVHRHLDQHEVRYLQFAFRWMNN 252
Query: 431 LFRRELSFEQTLCLWEV 447
L RE+ T+ LW+
Sbjct: 253 LLMREVPLRCTIRLWDT 269
>pdb|3QYE|A Chain A, Crystal Structure Of Human Tbc1d1 Rabgap Domain
pdb|3QYE|B Chain B, Crystal Structure Of Human Tbc1d1 Rabgap Domain
Length = 331
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 332 LVAILEAYALYDPEIGYCQGMSDLLSPITAVITEDHEAFWC--FVGFMKKARHNFRLDEV 389
L IL+AY+L D E+GYCQG+S ++ I + + EAF F+ F R +R D +
Sbjct: 132 LYNILKAYSLLDQEVGYCQGLS-FVAGILLLHMSEEEAFKMLKFLMFDMGLRKQYRPDMI 190
Query: 390 GIRRQLSIVSKIIKVKDSHLYRHLEK 415
++ Q+ +S+++ LY HLE+
Sbjct: 191 ILQIQMYQLSRLLHDYHRDLYNHLEE 216
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 57/109 (52%), Gaps = 3/109 (2%)
Query: 332 LVAILEAYALYDPEIGYCQGMSDLLSPITAVITEDHEAFWC--FVGFMKKARHNFRLDEV 389
L +L+AY+L D E+GYCQG+S + + ++E+ +AF F+ + R +R D +
Sbjct: 122 LFNLLKAYSLLDKEVGYCQGISFVAGVLLLHMSEE-QAFEMLKFLMYDLGFRKQYRPDMM 180
Query: 390 GIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFFVYRMVVVLFRRELSF 438
++ Q+ +S+++ LY HLE+ + + + LF + S
Sbjct: 181 SLQIQMYQLSRLLHDYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSL 229
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/133 (22%), Positives = 56/133 (42%), Gaps = 5/133 (3%)
Query: 332 LVAILEAYALYDPEIGYCQGMSDLLSPITAVITEDHEAFWCFVGFMKKARHN--FRLDEV 389
L +IL AY Y P++GY QGMS ++ + + + +AF F + K FR+D
Sbjct: 137 LHSILGAYTCYRPDVGYVQGMS-FIAAVLILNLDTADAFIAFSNLLNKPCQMAFFRVDHG 195
Query: 390 GIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFFVYRMVVVLFRRELSFEQTLCLWEVMW 449
+ + + L+ H +K ++ + L+ + L + +W+V
Sbjct: 196 LMLTYFAAFEVFFEENLPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFC 255
Query: 450 AD--QAAIRAGIG 460
D + R +G
Sbjct: 256 RDGEEFLFRTALG 268
>pdb|3HZJ|A Chain A, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
pdb|3HZJ|B Chain B, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
pdb|3HZJ|C Chain C, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
Length = 310
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 48/107 (44%), Gaps = 11/107 (10%)
Query: 332 LVAILEAYALYDPEIGYCQGMSDLLSPITAVITEDHEAFWCFV------GFMKKARHNFR 385
L I +AY++YD +IGYCQG S L+ + + + +AF V G R+NF
Sbjct: 98 LYKICKAYSVYDEDIGYCQGQS-FLAAVLLLHXPEEQAFCVLVKIXYDYGLRDLYRNNFE 156
Query: 386 LDEVGIRRQLSIVSKIIKVKDSHLYRHLEKLQAEDCFFVYRMVVVLF 432
+ + + ++ + + L+ H L E + + + LF
Sbjct: 157 ----DLHCKFYQLERLXQEQLPDLHSHFSDLNLEAHXYASQWFLTLF 199
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
0.322 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,280,052
Number of Sequences: 62578
Number of extensions: 423216
Number of successful extensions: 921
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 903
Number of HSP's gapped (non-prelim): 13
length of query: 538
length of database: 14,973,337
effective HSP length: 103
effective length of query: 435
effective length of database: 8,527,803
effective search space: 3709594305
effective search space used: 3709594305
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: 54 (25.4 bits)