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= 006820
(630 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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 73/223 (32%), Positives = 107/223 (47%), Gaps = 20/223 (8%)
Query: 80 LESLVHGGVPKDLRGELWQAFVGVKARRTESYYQDLLAQEINADESKEHDNSFGVPRKWK 139
L +LV GVP+ LR E+WQ G + +L + +A ES
Sbjct: 26 LSTLVKSGVPEALRAEVWQLLAGCHDNQAXLDRYRILITKDSAQESV------------- 72
Query: 140 KQIEKDIPRTFPAHPALNE---DGRDSLRRLLLAYALHNPSVGYCQAMNFFAGLLLLLMP 196
I +DI RTFPAH + DG++SL ++ AY++++ +GYCQ +F A +LLL P
Sbjct: 73 --ITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQSFLAAVLLLHXP 130
Query: 197 EENAFWTFVGIIDDY-FDGYYTEEMIEAQVDQLVFEELIRERFPKLVHHLDYLGVQVTWI 255
EE AF V I DY Y + E L +E+ P L H L ++
Sbjct: 131 EEQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPDLHSHFSDLNLEAHXY 190
Query: 256 SGPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLFRTALALME 298
+ WFL++F P V + D+LL EG ++ F ALAL++
Sbjct: 191 ASQWFLTLFTAKFPLCXVFHIIDLLLCEGLNII-FHVALALLK 232
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 71/224 (31%), Positives = 115/224 (51%), Gaps = 12/224 (5%)
Query: 78 EELESLVHGGVPKDLRGELWQAFVGVKARRTESYYQDLLAQEINADESKEHDNSFGVPRK 137
E++ +L+ GVPK RGE+WQ F+ ++ R +I+ E + +
Sbjct: 40 EDIHTLLKEGVPKSRRGEIWQ-FLALQYRLRHRLPNKQQPPDISYKELLKQLTA------ 92
Query: 138 WKKQIEKDIPRTFPAHPALNED---GRDSLRRLLLAYALHNPSVGYCQAMNFFAGLLLLL 194
+ I D+ RTFP HP + G+ SL LL AY+L + VGYCQ ++F AG+LLL
Sbjct: 93 QQHAILVDLGRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGISFVAGVLLLH 152
Query: 195 MPEENAFWTFVGIIDDY-FDGYYTEEMIEAQVDQLVFEELIRERFPKLVHHLDYLGVQVT 253
M EE AF ++ D F Y +M+ Q+ L+ + L +HL+ + +
Sbjct: 153 MSEEQAFEMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNHLEENEISPS 212
Query: 254 WISGPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLFRTALALM 297
+ PWFL++F + V RV+D++ +G V +F+ AL+L+
Sbjct: 213 LYAAPWFLTLFASQFSLGFVARVFDIIFLQGTEV-IFKVALSLL 255
>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 = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 75/256 (29%), Positives = 126/256 (49%), Gaps = 32/256 (12%)
Query: 78 EELESLVHGGVPKDLRGELWQAFVGVKARRTESY----------YQDLLAQEINADESKE 127
E++ S V GVP+ RGE+W+ F+ + + Y++LL Q S++
Sbjct: 50 EKMHSAVGQGVPRHHRGEIWK-FLAEQFHLKHQFPSKQQPKDVPYKELLKQL----TSQQ 104
Query: 128 HDNSFGVPRKWKKQIEKDIPRTFPAHPALNED---GRDSLRRLLLAYALHNPSVGYCQAM 184
H I D+ RTFP HP + G+ SL +L AY+L + VGYCQ +
Sbjct: 105 H------------AILIDLGRTFPTHPYFSAQLGAGQLSLYNILKAYSLLDQEVGYCQGL 152
Query: 185 NFFAGLLLLLMPEENAFWTFVGIIDDY-FDGYYTEEMIEAQVDQLVFEELIRERFPKLVH 243
+F AG+LLL M EE AF ++ D Y +MI Q+ L+ + L +
Sbjct: 153 SFVAGILLLHMSEEEAFKMLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDLYN 212
Query: 244 HLDYLGVQVTWISGPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLFRTALALMELYGPA 303
HL+ + + + PWFL++F + P V RV+D++ +G V +F+ AL+L+ + P
Sbjct: 213 HLEEHEIGPSLYAAPWFLTMFASQFPLGFVARVFDMIFLQGTEV-IFKVALSLLGSHKPL 271
Query: 304 LVTTKDAGDAITLLQS 319
++ ++ + ++S
Sbjct: 272 ILQHENLETIVDFIKS 287
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 63/233 (27%), Positives = 99/233 (42%), Gaps = 26/233 (11%)
Query: 87 GVPKDLRGELWQAFVGVKARRTESYYQDLLAQ--------EINADESKEHDNSFGVPRKW 138
G+P +RG++W +G + T + LA+ E + D F +
Sbjct: 48 GIPPSVRGKVWSLAIGNELNITHELFDICLARAKERWRSLSTGGSEVENEDAGFSAADRE 107
Query: 139 K--KQIEKDIPRTFPAHPALNEDG--RDSLRRLLLAYALHNPSVGYCQAMNFFAGLLLLL 194
+ I+ DI RTFP + G D L +L AY + P VGY Q M+F A +L+L
Sbjct: 108 ASLELIKLDISRTFPNLCIFQQGGPYHDMLHSILGAYTCYRPDVGYVQGMSFIAAVLILN 167
Query: 195 MPEENAFWTFVGIIDDYFDGYYTEEMIEAQVDQ-------LVFEELIRERFPKLVHHLDY 247
+ +AF F +++ +M +VD FE E PKL H
Sbjct: 168 LDTADAFIAFSNLLNK------PCQMAFFRVDHGLMLTYFAAFEVFFEENLPKLFAHFKK 221
Query: 248 LGVQVTWISGPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLFRTALALMELY 300
+ W +++ LP + R+WDV +G LFRTAL +++L+
Sbjct: 222 NNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFCRDGEE-FLFRTALGILKLF 273
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 64/289 (22%), Positives = 117/289 (40%), Gaps = 51/289 (17%)
Query: 77 KEELESLVHGGVPKDLRGELWQAFVG---VKARRTESY-------YQDLLAQEINADESK 126
+++L + G+PK R +W+ +G V +R E + Y+D L + S+
Sbjct: 43 QQDLRQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRDSLKHTFSDQHSR 102
Query: 127 EHDNSFGVPRKWKKQIEKDIPRTFPAHPALN-EDGRDSLRRLLLAYALHNPSVGYCQAMN 185
+ +P W QIE DIPRT P P + ++SL+R+L +A+ +P+ GY Q +N
Sbjct: 103 D------IP-TWH-QIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGIN 154
Query: 186 -----FFAGLLLLLMP------------------------EENAFWTFVGIIDDYFDGY- 215
FF L +P E + FW +++ D Y
Sbjct: 155 DLVTPFFETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDNYI 214
Query: 216 YTEEMIEAQVDQLVFEELIRERFPKLVHHLDYLGVQVTWISGPWFLSIFVNILPWESVLR 275
+ + I QV L +L++ L +H V+ + W + + +V+R
Sbjct: 215 HGQPGILRQVKNL--SQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMGTVIR 272
Query: 276 VWDVLLYEGNRVMLFRTALALMELYGPALVTTKDAGDAITLLQSLAGST 324
+WD L E ++ + +++ ++ P T +T + T
Sbjct: 273 MWDTYLSETSQEVTSSYSMSSNDIKPPVTPTEPRVASFVTPTKDFQSPT 321
>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 = 62.0 bits (149), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 65/300 (21%), Positives = 116/300 (38%), Gaps = 49/300 (16%)
Query: 78 EELESLVHGGVPKDLRGELWQAFVG----------VKARRTESYYQDLLAQEINADESKE 127
EEL L G+PK +R W+ G +R + Y + ++ +
Sbjct: 41 EELRRLSWSGIPKPVRPMTWKLLSGYLPANVDRRPATLQRKQKEYFAFIEHYYDSRNDEV 100
Query: 128 HDNSFGVPRKWKKQIEKDIPRTFPAHPALNEDGRDSLRRLLLAYALHNPSVGYCQAMN-- 185
H +++ +QI DIPR P L + R+L +A+ +P+ GY Q +N
Sbjct: 101 HQDTY-------RQIHIDIPRMSPEALILQPKVTEIFERILFIWAIRHPASGYVQGINDL 153
Query: 186 ---FFAGLL--------------------LLLMPEENAFWTFVGIIDDYFDGY-YTEEMI 221
FF + +L E + +W ++D D Y + + I
Sbjct: 154 VTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDGIQDNYTFAQPGI 213
Query: 222 EAQVDQLVFEELIRERFPKLVH-HLDYLGVQVTWISGPWFLSIFVNILPWESVLRVWDVL 280
+ +V L EEL+ R + VH HLD V+ + W ++ + +P +R+WD
Sbjct: 214 QMKVKML--EELV-SRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVPLRCTIRLWDTY 270
Query: 281 LYEGNRVMLFR--TALALMELYGPALVTTKDAGDAITLLQSLAGSTFDSSQLVFTACMGY 338
E + F A + + ++ KD + + LQ+L + +D + Y
Sbjct: 271 QSEPDGFSHFHLYVCAAFLVRWRKEILEEKDFQELLLFLQNLPTAHWDDEDISLLLAEAY 330
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 64/289 (22%), Positives = 114/289 (39%), Gaps = 51/289 (17%)
Query: 77 KEELESLVHGGVPKDLRGELWQAFVG---VKARRTESY-------YQDLLAQEINADESK 126
+++L + G+PK R +W+ +G V +R E + Y+D L + S+
Sbjct: 23 QQDLRQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRDSLKHTFSDQHSR 82
Query: 127 EHDNSFGVPRKWKKQIEKDIPRTFPAHPALN-EDGRDSLRRLLLAYALHNPSVGYCQAMN 185
+ +P W QIE DIPRT P P + ++SL+R+L +A+ +P+ GY Q +N
Sbjct: 83 D------IP-TWH-QIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGIN 134
Query: 186 -----FFAGLLLLLMP------------------------EENAFWTFVGIIDDYFDGY- 215
FF L +P E + FW +++ D Y
Sbjct: 135 DLVTPFFETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQITDNYI 194
Query: 216 YTEEMIEAQVDQLVFEELIRERFPKLVHHLDYLGVQVTWISGPWFLSIFVNILPWESVLR 275
+ + I QV L +L++ L +H V+ + W + +V+R
Sbjct: 195 HGQPGILRQVKNL--SQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREFQXGTVIR 252
Query: 276 VWDVLLYEGNRVMLFRTALALMELYGPALVTTKDAGDAITLLQSLAGST 324
WD L E ++ + + + ++ P T +T + T
Sbjct: 253 XWDTYLSETSQEVTSSYSXSSNDIKPPVTPTEPRVASFVTPTKDFQSPT 301
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 64/282 (22%), Positives = 113/282 (40%), Gaps = 49/282 (17%)
Query: 78 EELESLVHGGVPKDLRGELWQAFVG----------VKARRTESYYQDLLAQEINADESKE 127
+EL GVP+++R W+ G + +R Y + Q ++ +
Sbjct: 42 DELRKCSWPGVPREVRPITWRLLSGYLPANTERRKLTLQRKREEYFGFIEQYYDSRNEEH 101
Query: 128 HDNSFGVPRKWKKQIEKDIPRTFPAHPALNED-GRDSLRRLLLAYALHNPSVGYCQAMN- 185
H +++ +QI DIPRT P P + ++ R+L +A+ +P+ GY Q +N
Sbjct: 102 HQDTY-------RQIHIDIPRTNPLIPLFQQPLVQEIFERILFIWAIRHPASGYVQGIND 154
Query: 186 ----FFAGLL-------------------LLLMPEENAFWTFVGIIDDYFDGY-YTEEMI 221
FF L +L E ++FW ++D D Y + + I
Sbjct: 155 LVTPFFVVFLSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYTFAQPGI 214
Query: 222 EAQVDQLVFEELIRERFPKLVH-HLDYLGVQVTWISGPWFLSIFVNILPWESVLRVWDVL 280
+ +V L EEL+ R + VH H V+ + W ++ + LP +R+WD
Sbjct: 215 QKKVKAL--EELV-SRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWDTY 271
Query: 281 LYEGNRVMLFR--TALALMELYGPALVTTKDAGDAITLLQSL 320
E F A + + ++ +D + LLQ+L
Sbjct: 272 QSEPEGFSHFHLYVCAAFLIKWRKEILDEEDFQGLLMLLQNL 313
>pdb|1C7N|A Chain A, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|B Chain B, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|C Chain C, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|D Chain D, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|E Chain E, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|F Chain F, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|G Chain G, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|H Chain H, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7O|A Chain A, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|B Chain B, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|C Chain C, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|D Chain D, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|E Chain E, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|F Chain F, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|G Chain G, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|H Chain H, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
Length = 399
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 12/115 (10%)
Query: 337 GYLTVTEARLQELREKHRPAVLLVVEERSKGGRVWKDPNGLATKLYSFKHDPELLIEE-- 394
GY T+ +L++L + LL + GRVWK K K D L +E
Sbjct: 147 GYYTIDFQKLEKLSKDKNNKALLFCSPHNPVGRVWKKDELQKIKDIVLKSDLMLWSDEIH 206
Query: 395 ----NKGTEGS-----DDALADGDLSYKEPAANLDEMLSGLSVNSELEGRDLQEQ 440
G E + D+ LAD +++ P+ + G+S N ++ D++E+
Sbjct: 207 FDLIMPGYEHTVFQSIDEQLADKTITFTAPSKTFNIAGMGMS-NIIIKNPDIRER 260
>pdb|1S3R|A Chain A, Crystal Structure Of The Human-Specific Toxin
Intermedilysin
pdb|1S3R|B Chain B, Crystal Structure Of The Human-Specific Toxin
Intermedilysin
Length = 535
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 23/92 (25%)
Query: 538 RYAVNVLEEK----YEKAMASVAQMEKRAVMAESMLEATLQYESGQAKA----------- 582
R AVN L EK Y K A A+M+ ++ A+SM + ++ + +K
Sbjct: 185 RTAVNNLVEKWIQNYSKTHAVPARMQYESISAQSMSQLQAKFGADFSKVGAPLNVDFSSV 244
Query: 583 --------VSSPRAVHNQSSVDSPKRRIGLFG 606
+++ R V+ +SVDSP LFG
Sbjct: 245 HKGEKQVFIANFRQVYYTASVDSPNSPSALFG 276
>pdb|3QWL|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 7
Length = 294
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 26/131 (19%), Positives = 54/131 (41%), Gaps = 11/131 (8%)
Query: 207 IIDDYFDGYYTEEMIEAQVD--------QL--VFEELIRERFPKLVHHLDYLGVQVTWIS 256
+++D D Y+ Q++ QL FE+ + +L+ HL
Sbjct: 145 MVEDSVDCYWITRRFVNQLNTKYRDSLPQLPKAFEQYLNLEDGRLLTHLRMCSAAPKLPY 204
Query: 257 GPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLFRTALALMELYGPALVTTKDAGDAITL 316
WF F LP S+ RVWD ++ ++++F A+ ++ + ++ A
Sbjct: 205 DLWFKRCFAGCLPESSLQRVWDKVVSGSCKILVF-VAVEILLTFKIKVMALNSAEKITKF 263
Query: 317 LQSLAGSTFDS 327
L+++ + D+
Sbjct: 264 LENIPQDSSDA 274
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
0.315 0.132 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,170,528
Number of Sequences: 62578
Number of extensions: 768917
Number of successful extensions: 1895
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1858
Number of HSP's gapped (non-prelim): 33
length of query: 630
length of database: 14,973,337
effective HSP length: 105
effective length of query: 525
effective length of database: 8,402,647
effective search space: 4411389675
effective search space used: 4411389675
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)