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= psy16313
(1018 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 = 63.2 bits (152), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 56/247 (22%), Positives = 102/247 (41%), Gaps = 39/247 (15%)
Query: 336 IIQSRELRTVIYYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWK 395
II ++LR I + GI R VVWK ++ P ++ K + + +RK +EY RD+ K
Sbjct: 40 IINQQDLRQ-ISWNGIPKIHRPVVWKLLIGYLP--VNTKRQEGFLQRKRKEY---RDSLK 93
Query: 396 DLLKRGQMVGDLAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVS 455
Q D+ + D+ RT+ H Y SL IL +A+ HPA
Sbjct: 94 HTFS-DQHSRDIP-TWHQIEIDIPRTNPHIPLYQFKSVQN---SLQRILYLWAIRHPASG 148
Query: 456 YCQGMSDLASPLLVTMSN----------------------------EAHAYICFCALMRR 487
Y QG++DL +P T EA + C L+ +
Sbjct: 149 YVQGINDLVTPFFETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQ 208
Query: 488 LGRNFLVDGITMTQRFQHLADGLEYYHPKFYEYLKSHQADDLLYCYRWLLLEMKREFAFN 547
+ N++ + ++ ++L+ ++ Y + ++ + + + +RW+ + REF
Sbjct: 209 ITDNYIHGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMG 268
Query: 548 DALIMLE 554
+ M +
Sbjct: 269 TVIRMWD 275
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 62.0 bits (149), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 55/237 (23%), Positives = 98/237 (41%), Gaps = 39/237 (16%)
Query: 336 IIQSRELRTVIYYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWK 395
II ++LR I + GI R VVWK ++ P ++ K + + +RK +EY RD+ K
Sbjct: 20 IINQQDLRQ-ISWNGIPKIHRPVVWKLLIGYLP--VNTKRQEGFLQRKRKEY---RDSLK 73
Query: 396 DLLKRGQMVGDLAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVS 455
Q D+ + D+ RT+ H Y SL IL +A+ HPA
Sbjct: 74 HTFS-DQHSRDIP-TWHQIEIDIPRTNPHIPLYQFKSVQN---SLQRILYLWAIRHPASG 128
Query: 456 YCQGMSDLASPLLVTMSN----------------------------EAHAYICFCALMRR 487
Y QG++DL +P T EA + C L+ +
Sbjct: 129 YVQGINDLVTPFFETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQ 188
Query: 488 LGRNFLVDGITMTQRFQHLADGLEYYHPKFYEYLKSHQADDLLYCYRWLLLEMKREF 544
+ N++ + ++ ++L+ ++ Y + ++ + + + +RW + REF
Sbjct: 189 ITDNYIHGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREF 245
>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 = 58.9 bits (141), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 61/132 (46%), Gaps = 2/132 (1%)
Query: 417 DVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVSYCQGMSDLASPLLVTMS-NEA 475
D+ RT H +++ A +SL+NIL Y+L V YCQG+S +A LL+ MS EA
Sbjct: 110 DLGRTFPTHPYFS-AQLGAGQLSLYNILKAYSLLDQEVGYCQGLSFVAGILLLHMSEEEA 168
Query: 476 HAYICFCALMRRLGRNFLVDGITMTQRFQHLADGLEYYHPKFYEYLKSHQADDLLYCYRW 535
+ F L + + D I + + L+ L YH Y +L+ H+ LY W
Sbjct: 169 FKMLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAAPW 228
Query: 536 LLLEMKREFAFN 547
L +F
Sbjct: 229 FLTMFASQFPLG 240
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 53.9 bits (128), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 56/112 (50%), Gaps = 3/112 (2%)
Query: 438 ISLFNILTTYALNHPAVSYCQGMSDLASPLLVTMSNEAHAYICFCALMRRLG--RNFLVD 495
+SLFN+L Y+L V YCQG+S +A LL+ MS E A+ LM LG + + D
Sbjct: 120 LSLFNLLKAYSLLDKEVGYCQGISFVAGVLLLHMSEE-QAFEMLKFLMYDLGFRKQYRPD 178
Query: 496 GITMTQRFQHLADGLEYYHPKFYEYLKSHQADDLLYCYRWLLLEMKREFAFN 547
+++ + L+ L YH Y +L+ ++ LY W L +F+
Sbjct: 179 MMSLQIQMYQLSRLLHDYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSLG 230
>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 = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 51/237 (21%), Positives = 89/237 (37%), Gaps = 39/237 (16%)
Query: 325 EFRQFLDPVGQIIQSRELRTVIYYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKS 384
+F+Q L G ELR + + GI +R + WK + P + R +RK
Sbjct: 28 KFKQLL--AGPNTDLEELRR-LSWSGIPKPVRPMTWKLLSGYLPANVD--RRPATLQRKQ 82
Query: 385 EEYYKLRDTWKDLLKRGQMVGDLAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFN-I 443
+EY+ + + D R V Y + D+ R + V +F I
Sbjct: 83 KEYFAFIEHYYD--SRNDEVHQDTY--RQIHIDIPRMSPEALIL-----QPKVTEIFERI 133
Query: 444 LTTYALNHPAVSYCQGMSDLASPLLVTM------------------------SNEAHAYI 479
L +A+ HPA Y QG++DL +P V + EA Y
Sbjct: 134 LFIWAIRHPASGYVQGINDLVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYW 193
Query: 480 CFCALMRRLGRNFLVDGITMTQRFQHLADGLEYYHPKFYEYLKSHQADDLLYCYRWL 536
C L+ + N+ + + + L + + + + +L H+ L + +RW+
Sbjct: 194 CMSKLLDGIQDNYTFAQPGIQMKVKMLEELVSRIDEQVHRHLDQHEVRYLQFAFRWM 250
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 88/204 (43%), Gaps = 11/204 (5%)
Query: 339 SRELRTVIYYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWKDLL 398
SR++R +++ GI PS+R VW L + E E + +++E ++ T +
Sbjct: 38 SRKVRD-LWWQGIPPSVRGKVWS--LAIGNELNITHELFDICLARAKERWRSLSTGGSEV 94
Query: 399 KR---GQMVGDLAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVS 455
+ G D +++ D+ RT + + ++ L +IL Y P V
Sbjct: 95 ENEDAGFSAADREASLELIKLDISRTFPNLCIFQQGGPYHDM--LHSILGAYTCYRPDVG 152
Query: 456 YCQGMSDLASPLLVTMSNEAHAYICFCALMRRLGRN--FLVDGITMTQRFQHLADGLEYY 513
Y QGMS +A+ L++ + + A A+I F L+ + + F VD M F E
Sbjct: 153 YVQGMSFIAAVLILNL-DTADAFIAFSNLLNKPCQMAFFRVDHGLMLTYFAAFEVFFEEN 211
Query: 514 HPKFYEYLKSHQADDLLYCYRWLL 537
PK + + K + +Y W+
Sbjct: 212 LPKLFAHFKKNNLTPDIYLIDWIF 235
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/223 (19%), Positives = 87/223 (39%), Gaps = 54/223 (24%)
Query: 348 YGGIEPSLRRVVWKHILNVYPEGMSGKERMEYT-RRKSEEYYKLRDTWKDLLKRGQMVGD 406
+ G+ +R + W+ + P + ER + T +RK EEY+ + + D R +
Sbjct: 49 WPGVPREVRPITWRLLSGYLP---ANTERRKLTLQRKREEYFGFIEQYYD--SRNEEHHQ 103
Query: 407 LAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFN----------ILTTYALNHPAVSY 456
Y + D+ RT+ +I LF IL +A+ HPA Y
Sbjct: 104 DTY--RQIHIDIPRTN-------------PLIPLFQQPLVQEIFERILFIWAIRHPASGY 148
Query: 457 CQGMSDLASPLLVTM-----------------------SNEAHAYICFCALMRRLGRNFL 493
QG++DL +P V S EA ++ C L+ + N+
Sbjct: 149 VQGINDLVTPFFVVFLSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYT 208
Query: 494 VDGITMTQRFQHLADGLEYYHPKFYEYLKSHQADDLLYCYRWL 536
+ ++ + L + + + + + + ++ + L + +RW+
Sbjct: 209 FAQPGIQKKVKALEELVSRIDEQVHNHFRRYEVEYLQFAFRWM 251
>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 = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 9/76 (11%)
Query: 413 MVRKDVLRTDRHHVFY--AGADDNCNVISLFNILTTYALNHPAVSYCQGMSDLASPLLVT 470
++ +D+ RT H ++ G D SL+ I Y++ + YCQG S LA+ LL+
Sbjct: 72 VITRDIHRTFPAHDYFKDTGGDGQ---ESLYKICKAYSVYDEDIGYCQGQSFLAAVLLLH 128
Query: 471 MSNEAHAYICFCALMR 486
E FC L++
Sbjct: 129 XPEEQ----AFCVLVK 140
>pdb|1FEW|A Chain A, Crystal Structure Of SmacDIABLO
Length = 184
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 12/68 (17%)
Query: 359 VWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWKDLLKRGQMVGDLAYVTGMVRKDV 418
VW+ I+ E S K +EY KL TW + +M + AY TG + +
Sbjct: 77 VWQVIIGARAEMTS----------KHQEYLKLETTWMTAVGLSEMAAEAAYQTGADQASI 126
Query: 419 LRTDRHHV 426
T R+H+
Sbjct: 127 --TARNHI 132
>pdb|1G73|A Chain A, Crystal Structure Of Smac Bound To Xiap-Bir3 Domain
pdb|1G73|B Chain B, Crystal Structure Of Smac Bound To Xiap-Bir3 Domain
Length = 162
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 12/68 (17%)
Query: 359 VWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWKDLLKRGQMVGDLAYVTGMVRKDV 418
VW+ I+ E S K +EY KL TW + +M + AY TG + +
Sbjct: 77 VWQVIIGARAEMTS----------KHQEYLKLETTWMTAVGLSEMAAEAAYQTGADQASI 126
Query: 419 LRTDRHHV 426
T R+H+
Sbjct: 127 --TARNHI 132
>pdb|1Q7G|A Chain A, Homoserine Dehydrogenase In Complex With Suicide Inhibitor
Complex Nad-5-Hydroxy-4-Oxonorvaline
pdb|1Q7G|B Chain B, Homoserine Dehydrogenase In Complex With Suicide Inhibitor
Complex Nad-5-Hydroxy-4-Oxonorvaline
Length = 359
Score = 29.6 bits (65), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 279 CSFIQMLLKTDTQVEKTFNIFKGALSYMEDNMAALYLPPRSPLNDTEF 326
SF++ +++T +VEK IF G LSY+ + + S ND +F
Sbjct: 153 ISFLREIIQTGDEVEKIEGIFSGTLSYIFNEFST------SQANDVKF 194
>pdb|1EBF|A Chain A, Homoserine Dehydrogenase From S. Cerevisiae Complex With
Nad+
pdb|1EBF|B Chain B, Homoserine Dehydrogenase From S. Cerevisiae Complex With
Nad+
pdb|1EBU|A Chain A, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|B Chain B, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|C Chain C, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|D Chain D, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1TVE|A Chain A, Homoserine Dehydrogenase In Complex With 4-(4-Hydroxy-3-
Isopropylphenylthio)-2-Isopropylphenol
pdb|1TVE|B Chain B, Homoserine Dehydrogenase In Complex With 4-(4-Hydroxy-3-
Isopropylphenylthio)-2-Isopropylphenol
Length = 358
Score = 29.6 bits (65), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 279 CSFIQMLLKTDTQVEKTFNIFKGALSYMEDNMAALYLPPRSPLNDTEF 326
SF++ +++T +VEK IF G LSY+ + + S ND +F
Sbjct: 152 ISFLREIIQTGDEVEKIEGIFSGTLSYIFNEFST------SQANDVKF 193
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
0.318 0.131 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,885,071
Number of Sequences: 62578
Number of extensions: 1020010
Number of successful extensions: 2125
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2111
Number of HSP's gapped (non-prelim): 16
length of query: 1018
length of database: 14,973,337
effective HSP length: 108
effective length of query: 910
effective length of database: 8,214,913
effective search space: 7475570830
effective search space used: 7475570830
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)