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= 023831
(276 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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 51/156 (32%), Positives = 79/156 (50%), Gaps = 9/156 (5%)
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 AVLLENVLVNDCYTNNLSGCHVEQRVFKDLLVKQCP 262
+ + + D Y NN H + + L +Q P
Sbjct: 139 VKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLP 174
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 49/154 (31%), Positives = 76/154 (49%), Gaps = 13/154 (8%)
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 WMLAVLLENVLVNDCYTNNLSGCHVEQRVFKDLL 257
ML L+ ++ Y ++ ++ LL
Sbjct: 160 EMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLL 193
>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 = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 47/139 (33%), Positives = 71/139 (51%), Gaps = 13/139 (9%)
Query: 113 IRKGIPPVLRPKVWFSLSGAAKKKSTVPESY------YNDLTKAVEGKVTPATKQIDHDL 166
+ +G+P R ++W L+ K P 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 MLAVLLENVLVNDCYTNNL 243
ML L+ ++ + Y ++
Sbjct: 171 MLKFLMFDMGLRKQYRPDM 189
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 43/186 (23%), Positives = 73/186 (39%), Gaps = 37/186 (19%)
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 KDLLVK 259
++L+ +
Sbjct: 222 EELVSR 227
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 44/156 (28%), Positives = 66/156 (42%), Gaps = 37/156 (23%)
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 QGLNYVAALLLLVMKTEEDAFWMLAVLLENVLVNDC 238
QG++++AA+L+L + T DAF + N+L C
Sbjct: 155 QGMSFIAAVLILNLDT-ADAF----IAFSNLLNKPC 185
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 60/171 (35%), Gaps = 39/171 (22%)
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----------------------------EEDAFWMLAVLLENVLVN 236
T E D FW L LLE + N
Sbjct: 142 ETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQITDN 192
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 60/171 (35%), Gaps = 39/171 (22%)
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----------------------------EEDAFWMLAVLLENVLVN 236
T E D FW L LLE + N
Sbjct: 162 ETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDN 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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 43/190 (22%), Positives = 69/190 (36%), Gaps = 45/190 (23%)
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 QRVFKDLLVK 259
++ ++L+ +
Sbjct: 217 VKMLEELVSR 226
>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 = 1.1, 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|3N7T|A Chain A, Crystal Structure Of A Macrophage Binding Protein From
Cocci Immitis
Length = 247
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 7 KRDLALELQAQIPFLRPSIHARRANITVKFQDLYGFTVEGNVDDVNVLNEVRE 59
KR + P + P IH + +K + + GFT +G + + V++++RE
Sbjct: 136 KRGGVIGAVCHGPAMLPGIHDENGDSVIKDKTVTGFTTKGEI-MIKVIDKMRE 187
>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 = 27.7 bits (60), Expect = 8.0, 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 0.137 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,068,388
Number of Sequences: 62578
Number of extensions: 323778
Number of successful extensions: 682
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 16
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)