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= 018112
(360 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 = 105 bits (263), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 61/186 (32%), Positives = 95/186 (51%), Gaps = 9/186 (4%)
Query: 109 LKKLIRKGIPPVLRPKVWFSLSGAAKKKSTVPESYYNDLTKAVEGKVTPATKQIDHDLPR 168
L L++ G+P LR +VW L+G ++ + D + + K + I D+ R
Sbjct: 26 LSTLVKSGVPEALRAEVWQLLAGCHDNQAXL------DRYRILITKDSAQESVITRDIHR 79
Query: 169 TFPGHPWL-DTP-DGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLLLVMKTEEDAFWML 226
TFP H + DT DG +L ++ YS D D+GYCQG +++AA+LLL EE AF +L
Sbjct: 80 TFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQSFLAAVLLL-HXPEEQAFCVL 138
Query: 227 AVLLENVLVNDCYTNNLSGCHVEQRVFKDLLVKQCPRIASHLEALDFDVSLVATEWFLCL 286
+ + + D Y NN H + + L +Q P + SH L+ + A++WFL L
Sbjct: 139 VKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPDLHSHFSDLNLEAHXYASQWFLTL 198
Query: 287 FSKSLP 292
F+ P
Sbjct: 199 FTAKFP 204
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 60/185 (32%), Positives = 91/185 (49%), Gaps = 13/185 (7%)
Query: 112 LIRKGIPPVLRPKVW------FSLSGAAKKKSTVPESYYNDLTKAVEGKVTPATKQIDHD 165
L+++G+P R ++W + L K P+ Y +L K ++T I D
Sbjct: 45 LLKEGVPKSRRGEIWQFLALQYRLRHRLPNKQQPPDISYKELLK----QLTAQQHAILVD 100
Query: 166 LPRTFPGHPWLDTP--DGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLLLVMKTEEDAF 223
L RTFP HP+ G +L +L YS D +VGYCQG+++VA +LLL M +EE AF
Sbjct: 101 LGRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGISFVAGVLLLHM-SEEQAF 159
Query: 224 WMLAVLLENVLVNDCYTNNLSGCHVEQRVFKDLLVKQCPRIASHLEALDFDVSLVATEWF 283
ML L+ ++ Y ++ ++ LL + +HLE + SL A WF
Sbjct: 160 EMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNHLEENEISPSLYAAPWF 219
Query: 284 LCLFS 288
L LF+
Sbjct: 220 LTLFA 224
>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 = 91.7 bits (226), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 60/188 (31%), Positives = 91/188 (48%), Gaps = 13/188 (6%)
Query: 113 IRKGIPPVLRPKVW------FSLSGAAKKKSTVPESYYNDLTKAVEGKVTPATKQIDHDL 166
+ +G+P R ++W F L K + Y +L K ++T I DL
Sbjct: 56 VGQGVPRHHRGEIWKFLAEQFHLKHQFPSKQQPKDVPYKELLK----QLTSQQHAILIDL 111
Query: 167 PRTFPGHPWLDTP--DGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLLLVMKTEEDAFW 224
RTFP HP+ G +L +L YS D +VGYCQGL++VA +LLL M +EE+AF
Sbjct: 112 GRTFPTHPYFSAQLGAGQLSLYNILKAYSLLDQEVGYCQGLSFVAGILLLHM-SEEEAFK 170
Query: 225 MLAVLLENVLVNDCYTNNLSGCHVEQRVFKDLLVKQCPRIASHLEALDFDVSLVATEWFL 284
ML L+ ++ + Y ++ ++ LL + +HLE + SL A WFL
Sbjct: 171 MLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAAPWFL 230
Query: 285 CLFSKSLP 292
+F+ P
Sbjct: 231 TMFASQFP 238
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 55/217 (25%), Positives = 89/217 (41%), Gaps = 41/217 (18%)
Query: 109 LKKLIRKGIPPVLRPKVW--------------FSLSGAAKKK-----STVPESYYNDLTK 149
++ L +GIPP +R KVW F + A K+ ST N+
Sbjct: 41 VRDLWWQGIPPSVRGKVWSLAIGNELNITHELFDICLARAKERWRSLSTGGSEVENEDAG 100
Query: 150 AVEGKVTPATKQIDHDLPRTFP-------GHPWLDTPDGHATLRRVLVGYSFRDSDVGYC 202
+ + I D+ RTFP G P+ H L +L Y+ DVGY
Sbjct: 101 FSAADREASLELIKLDISRTFPNLCIFQQGGPY------HDMLHSILGAYTCYRPDVGYV 154
Query: 203 QGLNYVAALLLLVMKTEEDAFWMLAVLLENVLVNDCYTNNLSGCH----VEQRVFKDLLV 258
QG++++AA+L+L + T DAF + N+L C H F+
Sbjct: 155 QGMSFIAAVLILNLDT-ADAF----IAFSNLLNKPCQMAFFRVDHGLMLTYFAAFEVFFE 209
Query: 259 KQCPRIASHLEALDFDVSLVATEWFLCLFSKSLPSEV 295
+ P++ +H + + + +W L+SKSLP ++
Sbjct: 210 ENLPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDL 246
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 49/219 (22%), Positives = 85/219 (38%), Gaps = 37/219 (16%)
Query: 109 LKKLIRKGIPPVLRPKVWFSLSG-----AAKKKSTVP---ESYYNDLTKAVEGKVTP--- 157
L+K G+P +RP W LSG ++K T+ E Y+ + + + +
Sbjct: 44 LRKCSWPGVPREVRPITWRLLSGYLPANTERRKLTLQRKREEYFGFIEQYYDSRNEEHHQ 103
Query: 158 -ATKQIDHDLPRTFPGHPWLDTPDGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLLLVM 216
+QI D+PRT P P P R+L ++ R GY QG+N + +V
Sbjct: 104 DTYRQIHIDIPRTNPLIPLFQQPLVQEIFERILFIWAIRHPASGYVQGINDLVTPFFVVF 163
Query: 217 -----------------------KTEEDAFWMLAVLLENVLVNDCYTNNLSGCHVEQRVF 253
E D+FW ++ LL+ + D YT G + +
Sbjct: 164 LSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDG--IQDNYTFAQPGIQKKVKAL 221
Query: 254 KDLLVKQCPRIASHLEALDFDVSLVATEWFLCLFSKSLP 292
++L+ + ++ +H + + A W L + LP
Sbjct: 222 EELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELP 260
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 78/226 (34%), Gaps = 41/226 (18%)
Query: 105 NAITLKKLIRKGIPPVLRPKVWFSLSGAAKKKSTVPESY-------YNDLTKAV----EG 153
N L+++ GIP + RP VW L G + E + Y D K
Sbjct: 42 NQQDLRQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRDSLKHTFSDQHS 101
Query: 154 KVTPATKQIDHDLPRTFPGHPWLDTPDGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLL 213
+ P QI+ D+PRT P P +L+R+L ++ R GY QG+N +
Sbjct: 102 RDIPTWHQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFF 161
Query: 214 LVMKT----------------------------EEDAFWMLAVLLENVLVNDCYTNNLSG 245
T E D FW L LLE + D Y + G
Sbjct: 162 ETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQ--ITDNYIHGQPG 219
Query: 246 CHVEQRVFKDLLVKQCPRIASHLEALDFDVSLVATEWFLCLFSKSL 291
+ + L+ + + +H + + A W CL +
Sbjct: 220 ILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREF 265
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 78/226 (34%), Gaps = 41/226 (18%)
Query: 105 NAITLKKLIRKGIPPVLRPKVWFSLSGAAKKKSTVPESY-------YNDLTKAV----EG 153
N L+++ GIP + RP VW L G + E + Y D K
Sbjct: 22 NQQDLRQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRDSLKHTFSDQHS 81
Query: 154 KVTPATKQIDHDLPRTFPGHPWLDTPDGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLL 213
+ P QI+ D+PRT P P +L+R+L ++ R GY QG+N +
Sbjct: 82 RDIPTWHQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFF 141
Query: 214 LVMKT----------------------------EEDAFWMLAVLLENVLVNDCYTNNLSG 245
T E D FW L LLE + D Y + G
Sbjct: 142 ETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQ--ITDNYIHGQPG 199
Query: 246 CHVEQRVFKDLLVKQCPRIASHLEALDFDVSLVATEWFLCLFSKSL 291
+ + L+ + + +H + + A W CL +
Sbjct: 200 ILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREF 245
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 49/223 (21%), Positives = 81/223 (36%), Gaps = 45/223 (20%)
Query: 109 LKKLIRKGIPPVLRPKVWFSLSG---------------AAKKKSTVPESYYNDLTKAVEG 153
L++L GIP +RP W LSG K+ E YY+ V
Sbjct: 43 LRRLSWSGIPKPVRPMTWKLLSGYLPANVDRRPATLQRKQKEYFAFIEHYYDSRNDEVHQ 102
Query: 154 KVTPATKQIDHDLPRTFPGHPWLDTPDGHATLRRVLVGYSFRDSDVGYCQGLNYVAALLL 213
+QI D+PR P L P R+L ++ R GY QG+N +
Sbjct: 103 D---TYRQIHIDIPRMSPEALIL-QPKVTEIFERILFIWAIRHPASGYVQGINDLVTPFF 158
Query: 214 LVM------------------------KTEEDAFWMLAVLLENVLVNDCYTNNLSGCHVE 249
+V E D +W ++ LL+ + D YT G ++
Sbjct: 159 VVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDG--IQDNYTFAQPGIQMK 216
Query: 250 QRVFKDLLVKQCPRIASHLEALDFDVSLVATEWFLCLFSKSLP 292
++ ++L+ + ++ HL+ + A W L + +P
Sbjct: 217 VKMLEELVSRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVP 259
>pdb|1WXB|A Chain A, Solution Structure Of The Sh3 Domain From Human
Epidermal Growth Factor Receptor Pathway Substrate
8-Like Protein
Length = 68
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 39 LYGFTVEGNVDDVNVLNEVREKVREQGRVWWALEASKGANWYLQPQIASISEG 91
LY FT N ++++VL + +V E GR WW L + G Y+ I + G
Sbjct: 13 LYDFTAR-NANELSVLKDEVLEVLEDGRQWWKLRSRSGQAGYVPCNILGEASG 64
>pdb|2WY3|A Chain A, Structure Of The Hcmv Ul16-Micb Complex Elucidates
Select Binding Of A Viral Immunoevasin To Diverse Nkg2d
Ligands
pdb|2WY3|C Chain C, Structure Of The Hcmv Ul16-Micb Complex Elucidates
Select Binding Of A Viral Immunoevasin To Diverse Nkg2d
Ligands
Length = 319
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 26 HARRANITVKFQD---LYGFTVEGNVDDVNVLNEVREKVREQGRVWWALEASKGANW 79
H+ R N+ V QD GF EG++D L R+K R + + WA + W
Sbjct: 4 HSLRYNLMVLSQDESVQSGFLAEGHLDGQPFLRYDRQKRRAKPQGQWAEDVLGAETW 60
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
0.321 0.136 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,322,133
Number of Sequences: 62578
Number of extensions: 406696
Number of successful extensions: 827
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 800
Number of HSP's gapped (non-prelim): 15
length of query: 360
length of database: 14,973,337
effective HSP length: 100
effective length of query: 260
effective length of database: 8,715,537
effective search space: 2266039620
effective search space used: 2266039620
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: 52 (24.6 bits)