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= psy17322
(414 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 53/189 (28%), Positives = 91/189 (48%), Gaps = 16/189 (8%)
Query: 223 RTAEMTNLILRGVPDAKRREIWLTCSGAL-NEMLRDPDLYAAMRRRVQNERPNSNLSLSC 281
R ++ L+ GVP+A R E+W +G N+ D R R+ + ++ S+
Sbjct: 22 RPKGLSTLVKSGVPEALRAEVWQLLAGCHDNQAXLD-------RYRILITKDSAQESV-- 72
Query: 282 DEIERDLHRSLPEHPAFQ--CEIGINALRRVLTAYAAKNPQIGYCQAMNIVTSVFLIYTS 339
I RD+HR+ P H F+ G +L ++ AY+ + IGYCQ + + +V L++
Sbjct: 73 --ITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQSFLAAVLLLHXP 130
Query: 340 EQEAFWLLVCLC-ESLLPDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKLQNMGM-IRMI 397
E++AF +LV + + L D Y + L +E LP+LH ++ +
Sbjct: 131 EEQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPDLHSHFSDLNLEAHXY 190
Query: 398 SLSWFLTIF 406
+ WFLT+F
Sbjct: 191 ASQWFLTLF 199
>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 = 71.6 bits (174), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 95/205 (46%), Gaps = 6/205 (2%)
Query: 208 WELHFNRYKRGVSMYRTAEMTNLILRGVPDAKRREIWLTCSGALNEMLRDPDLYAAMRRR 267
WE + R + +M + + +GVP R EIW + + + P +
Sbjct: 33 WEKMLSTPGRSKIKFDMEKMHSAVGQGVPRHHRGEIWKFLAEQFHLKHQFPS--KQQPKD 90
Query: 268 VQNERPNSNLSLSCDEIERDLHRSLPEHPAFQCEIGIN--ALRRVLTAYAAKNPQIGYCQ 325
V + L+ I DL R+ P HP F ++G +L +L AY+ + ++GYCQ
Sbjct: 91 VPYKELLKQLTSQQHAILIDLGRTFPTHPYFSAQLGAGQLSLYNILKAYSLLDQEVGYCQ 150
Query: 326 AMNIVTSVFLIYTSEQEAFWLLVCLCESL-LPDYYNTKVVGALVDQGVMNDLIEEYLPNL 384
++ V + L++ SE+EAF +L L + L Y ++ + ++ L+ +Y +L
Sbjct: 151 GLSFVAGILLLHMSEEEAFKMLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDL 210
Query: 385 HEKLQNMGMI-RMISLSWFLTIFLS 408
+ L+ + + + WFLT+F S
Sbjct: 211 YNHLEEHEIGPSLYAAPWFLTMFAS 235
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 71.2 bits (173), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 52/200 (26%), Positives = 93/200 (46%), Gaps = 32/200 (16%)
Query: 226 EMTNLILRGVPDAKRREIWLTCSGALNEMLRDPDLYAAMRRRVQNERPNSN--------- 276
++ L+ GVP ++R EIW + A++ R+++ PN
Sbjct: 41 DIHTLLKEGVPKSRRGEIWQ---------------FLALQYRLRHRLPNKQQPPDISYKE 85
Query: 277 ----LSLSCDEIERDLHRSLPEHPAFQCEIGIN--ALRRVLTAYAAKNPQIGYCQAMNIV 330
L+ I DL R+ P HP F ++G +L +L AY+ + ++GYCQ ++ V
Sbjct: 86 LLKQLTAQQHAILVDLGRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGISFV 145
Query: 331 TSVFLIYTSEQEAFWLLVCLCESL-LPDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKL- 388
V L++ SE++AF +L L L Y ++ + ++ L+ +Y +L+ L
Sbjct: 146 AGVLLLHMSEEQAFEMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNHLE 205
Query: 389 QNMGMIRMISLSWFLTIFLS 408
+N + + WFLT+F S
Sbjct: 206 ENEISPSLYAAPWFLTLFAS 225
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/137 (21%), Positives = 61/137 (44%), Gaps = 8/137 (5%)
Query: 212 FNRYKRGVSMYRTAEMTNLILRGVPDAKRREIWLTCSGALNEMLRDPDLYAAMRRRVQNE 271
F+ + ++ ++ + G+P R +W G L + + + +R+ +
Sbjct: 11 FDNILKDKTIINQQDLRQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRD 70
Query: 272 RPNSNLS-------LSCDEIERDLHRSLPEHPAFQCEIGINALRRVLTAYAAKNPQIGYC 324
S + +IE D+ R+ P P +Q + N+L+R+L +A ++P GY
Sbjct: 71 SLKHTFSDQHSRDIPTWHQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYV 130
Query: 325 QAMN-IVTSVFLIYTSE 340
Q +N +VT F + +E
Sbjct: 131 QGINDLVTPFFETFLTE 147
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/137 (21%), Positives = 61/137 (44%), Gaps = 8/137 (5%)
Query: 212 FNRYKRGVSMYRTAEMTNLILRGVPDAKRREIWLTCSGALNEMLRDPDLYAAMRRRVQNE 271
F+ + ++ ++ + G+P R +W G L + + + +R+ +
Sbjct: 31 FDNILKDKTIINQQDLRQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRD 90
Query: 272 RPNSNLS-------LSCDEIERDLHRSLPEHPAFQCEIGINALRRVLTAYAAKNPQIGYC 324
S + +IE D+ R+ P P +Q + N+L+R+L +A ++P GY
Sbjct: 91 SLKHTFSDQHSRDIPTWHQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYV 150
Query: 325 QAMN-IVTSVFLIYTSE 340
Q +N +VT F + +E
Sbjct: 151 QGINDLVTPFFETFLTE 167
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 67/144 (46%), Gaps = 22/144 (15%)
Query: 220 SMYRTAEMTNLILRGVPDAKRREIWLTCSGALNEMLRDPDLY------AAMRRR------ 267
+M+ + ++ +L +G+P + R ++W G NE+ +L+ A R R
Sbjct: 34 TMWCSRKVRDLWWQGIPPSVRGKVWSLAIG--NELNITHELFDICLARAKERWRSLSTGG 91
Query: 268 --VQNERPN---SNLSLSCDEIERDLHRSLPEHPAFQCEIG--INALRRVLTAYAAKNPQ 320
V+NE ++ S + I+ D+ R+ P FQ + G + L +L AY P
Sbjct: 92 SEVENEDAGFSAADREASLELIKLDISRTFPNLCIFQ-QGGPYHDMLHSILGAYTCYRPD 150
Query: 321 IGYCQAMNIVTSVFLIYTSEQEAF 344
+GY Q M+ + +V ++ +AF
Sbjct: 151 VGYVQGMSFIAAVLILNLDTADAF 174
>pdb|4HLQ|A Chain A, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|C Chain C, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|E Chain E, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|G Chain G, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|I Chain I, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
Length = 305
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 56/124 (45%)
Query: 283 EIERDLHRSLPEHPAFQCEIGINALRRVLTAYAAKNPQIGYCQAMNIVTSVFLIYTSEQE 342
++ R L R P P Q E L ++ +NPQ+ Y Q + + FL+ E+
Sbjct: 102 DVRRSLRRFPPGMPEEQREGLQEELIDIILLILERNPQLHYYQGYHDIVVTFLLVVGERL 161
Query: 343 AFWLLVCLCESLLPDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKLQNMGMIRMISLSWF 402
A L+ L L D+ + + + +I++ P LH+ +Q+ + + +LSW
Sbjct: 162 ATSLVEKLSTHHLRDFMDPTMDNTKHILNYLMPIIDQVNPELHDFMQSAEVGTIFALSWL 221
Query: 403 LTIF 406
+T F
Sbjct: 222 ITWF 225
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 9/116 (7%)
Query: 234 GVPDAKRREIWLTCSGALNE--------MLRDPDLYAAMRRRVQNERPNSNLSLSCDEIE 285
GVP R W SG L + R + Y + + R + + +I
Sbjct: 51 GVPREVRPITWRLLSGYLPANTERRKLTLQRKREEYFGFIEQYYDSRNEEHHQDTYRQIH 110
Query: 286 RDLHRSLPEHPAFQCEIGINALRRVLTAYAAKNPQIGYCQAMN-IVTSVFLIYTSE 340
D+ R+ P P FQ + R+L +A ++P GY Q +N +VT F+++ SE
Sbjct: 111 IDIPRTNPLIPLFQQPLVQEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFLSE 166
>pdb|4HL4|A Chain A, Crystal Structure Of The Human Tbc1d20 Rabgap Domain
Length = 292
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 56/124 (45%)
Query: 283 EIERDLHRSLPEHPAFQCEIGINALRRVLTAYAAKNPQIGYCQAMNIVTSVFLIYTSEQE 342
++ R L R P P Q E L ++ +NPQ+ Y Q + + FL+ E+
Sbjct: 89 DVRRSLRRFPPGMPEEQREGLQEELIDIILLILERNPQLHYYQGYHDIVVTFLLVVGERL 148
Query: 343 AFWLLVCLCESLLPDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKLQNMGMIRMISLSWF 402
A L+ L L D+ + + + +I++ P LH+ +Q+ + + +LSW
Sbjct: 149 ATSLVEKLSTHHLRDFMDPTMDNTKHILNYLMPIIDQVNPELHDFMQSAEVGTIFALSWL 208
Query: 403 LTIF 406
+T F
Sbjct: 209 ITWF 212
>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 = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 50/124 (40%), Gaps = 10/124 (8%)
Query: 226 EMTNLILRGVPDAKRREIWLTCSGAL--------NEMLRDPDLYAAMRRRVQNERPNSNL 277
E+ L G+P R W SG L + R Y A + R +
Sbjct: 42 ELRRLSWSGIPKPVRPMTWKLLSGYLPANVDRRPATLQRKQKEYFAFIEHYYDSRNDEVH 101
Query: 278 SLSCDEIERDLHRSLPEHPAFQCEIGINALRRVLTAYAAKNPQIGYCQAMN-IVTSVFLI 336
+ +I D+ R PE Q ++ R+L +A ++P GY Q +N +VT F++
Sbjct: 102 QDTYRQIHIDIPRMSPEALILQPKV-TEIFERILFIWAIRHPASGYVQGINDLVTPFFVV 160
Query: 337 YTSE 340
+ E
Sbjct: 161 FICE 164
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 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,911,412
Number of Sequences: 62578
Number of extensions: 407684
Number of successful extensions: 859
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 841
Number of HSP's gapped (non-prelim): 12
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
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)