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= psy13593
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 311 bits (797), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 147/253 (58%), Positives = 196/253 (77%), Gaps = 1/253 (0%)
Query: 7 HLTLVQGVPRSKRGEVWLFLAQQYCKQNPMDTSKFPNYNVSYEQLLKQLTSHQHAILLDL 66
H + QGVPR RGE+W FLA+Q+ ++ + + P +V Y++LLKQLTS QHAIL+DL
Sbjct: 53 HSAVGQGVPRHHRGEIWKFLAEQFHLKHQFPSKQQPK-DVPYKELLKQLTSQQHAILIDL 111
Query: 67 GRTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGLSFVAGVLLLHHSEEQAFMM 126
GRTFP+HPY+S+ LG GQLSL+N+LKAYSLLD EVGYCQGLSFVAG+LLLH SEE+AF M
Sbjct: 112 GRTFPTHPYFSAQLGAGQLSLYNILKAYSLLDQEVGYCQGLSFVAGILLLHMSEEEAFKM 171
Query: 127 LRHLMFRRGLRQTYLPDMAALQVQLYQFSRLLLDHYPDLHAHFDTHEVHPTLYAAPWLLT 186
L+ LMF GLR+ Y PDM LQ+Q+YQ SRLL D++ DL+ H + HE+ P+LYAAPW LT
Sbjct: 172 LKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAAPWFLT 231
Query: 187 LFSSQFPLGFVTRVFDMVLVENPEIVFRVMLSLLGQHRENLLRCENFETIMDYLKTNITV 246
+F+SQFPLGFV RVFDM+ ++ E++F+V LSLLG H+ +L+ EN ETI+D++K+ +
Sbjct: 232 MFASQFPLGFVARVFDMIFLQGTEVIFKVALSLLGSHKPLILQHENLETIVDFIKSTLPN 291
Query: 247 MDKRTVDAIVKQV 259
+ ++ + QV
Sbjct: 292 LGLVQMEKTINQV 304
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 309 bits (791), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/258 (56%), Positives = 197/258 (76%), Gaps = 1/258 (0%)
Query: 7 HLTLVQGVPRSKRGEVWLFLAQQYCKQNPMDTSKFPNYNVSYEQLLKQLTSHQHAILLDL 66
H L +GVP+S+RGE+W FLA QY ++ + + P ++SY++LLKQLT+ QHAIL+DL
Sbjct: 43 HTLLKEGVPKSRRGEIWQFLALQYRLRHRLPNKQQPP-DISYKELLKQLTAQQHAILVDL 101
Query: 67 GRTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGLSFVAGVLLLHHSEEQAFMM 126
GRTFP+HPY+S LGPGQLSLFN+LKAYSLLD EVGYCQG+SFVAGVLLLH SEEQAF M
Sbjct: 102 GRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGISFVAGVLLLHMSEEQAFEM 161
Query: 127 LRHLMFRRGLRQTYLPDMAALQVQLYQFSRLLLDHYPDLHAHFDTHEVHPTLYAAPWLLT 186
L+ LM+ G R+ Y PDM +LQ+Q+YQ SRLL D++ DL+ H + +E+ P+LYAAPW LT
Sbjct: 162 LKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNHLEENEISPSLYAAPWFLT 221
Query: 187 LFSSQFPLGFVTRVFDMVLVENPEIVFRVMLSLLGQHRENLLRCENFETIMDYLKTNITV 246
LF+SQF LGFV RVFD++ ++ E++F+V LSLL ++ CE+FE I+++LK +
Sbjct: 222 LFASQFSLGFVARVFDIIFLQGTEVIFKVALSLLSSQETLIMECESFENIVEFLKNTLPD 281
Query: 247 MDKRTVDAIVKQVHRKEL 264
M+ ++ I+ QV ++
Sbjct: 282 MNTSEMEKIITQVFEMDI 299
>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 = 174 bits (440), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 93/237 (39%), Positives = 136/237 (57%), Gaps = 11/237 (4%)
Query: 9 TLVQ-GVPRSKRGEVWLFLAQQYCKQNPMDTSKFPNYNVSYEQLLKQLTSHQHAILLDLG 67
TLV+ GVP + R EVW LA + Q +D Y L+ + ++ + I D+
Sbjct: 28 TLVKSGVPEALRAEVWQLLAGCHDNQAXLD---------RYRILITKDSAQESVITRDIH 78
Query: 68 RTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGLSFVAGVLLLHHSEEQAFMML 127
RTFP+H Y+ G GQ SL+ + KAYS+ D ++GYCQG SF+A VLLLH EEQAF +L
Sbjct: 79 RTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQSFLAAVLLLHXPEEQAFCVL 138
Query: 128 RHLMFRRGLRQTYLPDMAALQVQLYQFSRLLLDHYPDLHAHFDTHEVHPTLYAAPWLLTL 187
+ + GLR Y + L + YQ RL + PDLH+HF + YA+ W LTL
Sbjct: 139 VKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPDLHSHFSDLNLEAHXYASQWFLTL 198
Query: 188 FSSQFPLGFVTRVFDMVLVENPEIVFRVMLSLLGQHRENLLRCENFETIMDYLKTNI 244
F+++FPL V + D++L E I+F V L+LL +E+LL+ +FE + + + +
Sbjct: 199 FTAKFPLCXVFHIIDLLLCEGLNIIFHVALALLKTSKEDLLQA-DFEGALKFFRVQL 254
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 103/227 (45%), Gaps = 21/227 (9%)
Query: 12 QGVPRSKRGEVW------------------LFLAQQYCKQNPMDTSKFPNYNVSYEQLLK 53
QG+P S RG+VW L A++ + S+ N + + +
Sbjct: 47 QGIPPSVRGKVWSLAIGNELNITHELFDICLARAKERWRSLSTGGSEVENEDAGFSAADR 106
Query: 54 QLTSHQHAILLDLGRTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGLSFVAGV 113
+ + I LD+ RTFP+ + GP L ++L AY+ P+VGY QG+SF+A V
Sbjct: 107 E--ASLELIKLDISRTFPNLCIFQQG-GPYHDMLHSILGAYTCYRPDVGYVQGMSFIAAV 163
Query: 114 LLLHHSEEQAFMMLRHLMFRRGLRQTYLPDMAALQVQLYQFSRLLLDHYPDLHAHFDTHE 173
L+L+ AF+ +L+ + + D + F ++ P L AHF +
Sbjct: 164 LILNLDTADAFIAFSNLLNKPCQMAFFRVDHGLMLTYFAAFEVFFEENLPKLFAHFKKNN 223
Query: 174 VHPTLYAAPWLLTLFSSQFPLGFVTRVFDMVLVENPEIVFRVMLSLL 220
+ P +Y W+ TL+S PL R++D+ + E +FR L +L
Sbjct: 224 LTPDIYLIDWIFTLYSKSLPLDLACRIWDVFCRDGEEFLFRTALGIL 270
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 57/241 (23%), Positives = 88/241 (36%), Gaps = 49/241 (20%)
Query: 13 GVPRSKRGEVWLFLAQQYCKQNPMDTSKFPNY----NVSYEQLLKQLTSHQHA------- 61
G+P+ R VW L P++T + + Y LK S QH+
Sbjct: 53 GIPKIHRPVVWKLLIGYL----PVNTKRQEGFLQRKRKEYRDSLKHTFSDQHSRDIPTWH 108
Query: 62 -ILLDLGRTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGL------------- 107
I +D+ RT P P Y Q SL +L +++ P GY QG+
Sbjct: 109 QIEIDIPRTNPHIPLYQ--FKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFETFLT 166
Query: 108 -----SFVAGVLLLHHS-----------EEQAFMMLRHLMFRRGLRQTYLPDMAALQVQL 151
S + V + S E F L L+ + Y+ + Q+
Sbjct: 167 EYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLL--EQITDNYIHGQPGILRQV 224
Query: 152 YQFSRLLLDHYPDLHAHFDTHEVHPTLYAAPWLLTLFSSQFPLGFVTRVFDMVLVENPEI 211
S+L+ DL+ HF V +A W+ L +F +G V R++D L E +
Sbjct: 225 KNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMGTVIRMWDTYLSETSQE 284
Query: 212 V 212
V
Sbjct: 285 V 285
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 57/241 (23%), Positives = 85/241 (35%), Gaps = 49/241 (20%)
Query: 13 GVPRSKRGEVWLFLAQQYCKQNPMDTSKFPNY----NVSYEQLLKQLTSHQHA------- 61
G+P+ R VW L P++T + + Y LK S QH+
Sbjct: 33 GIPKIHRPVVWKLLIGYL----PVNTKRQEGFLQRKRKEYRDSLKHTFSDQHSRDIPTWH 88
Query: 62 -ILLDLGRTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGL------------- 107
I +D+ RT P P Y Q SL +L +++ P GY QG+
Sbjct: 89 QIEIDIPRTNPHIPLYQ--FKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFETFLT 146
Query: 108 -----SFVAGVLLLHHS-----------EEQAFMMLRHLMFRRGLRQTYLPDMAALQVQL 151
S + V + S E F L L+ + Y+ + Q+
Sbjct: 147 EYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLL--EQITDNYIHGQPGILRQV 204
Query: 152 YQFSRLLLDHYPDLHAHFDTHEVHPTLYAAPWLLTLFSSQFPLGFVTRVFDMVLVENPEI 211
S+L+ DL+ HF V +A W L +F G V R +D L E +
Sbjct: 205 KNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREFQXGTVIRXWDTYLSETSQE 264
Query: 212 V 212
V
Sbjct: 265 V 265
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 61/272 (22%), Positives = 101/272 (37%), Gaps = 44/272 (16%)
Query: 13 GVPRSKRGEVWLFLAQQYCKQNPMDTS-----KFPNYNVSYEQLLKQLTSHQHA-----I 62
GVPR R W L+ Y N K Y EQ H I
Sbjct: 51 GVPREVRPITWRLLSG-YLPANTERRKLTLQRKREEYFGFIEQYYDSRNEEHHQDTYRQI 109
Query: 63 LLDLGRTFPSHPYYSSPLGPGQLSLFNVLKAYSLLDPEVGYCQGLS---------FVAGV 113
+D+ RT P P + PL Q +L +++ P GY QG++ F++
Sbjct: 110 HIDIPRTNPLIPLFQQPLV--QEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFLSEY 167
Query: 114 L---------------LLHHSEEQAFMMLRHLMFRRGLRQTYLPDMAALQVQLYQFSRLL 158
+ +L E +F + L+ G++ Y +Q ++ L+
Sbjct: 168 VEEDVENFDVTNLSQDMLRSIEADSFWCMSKLL--DGIQDNYTFAQPGIQKKVKALEELV 225
Query: 159 LDHYPDLHAHFDTHEVHPTLYAAPWLLTLFSSQFPLGFVTRVFDMVLVENPEIV----FR 214
+H HF +EV +A W+ L + PL R++D E PE
Sbjct: 226 SRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWDTYQSE-PEGFSHFHLY 284
Query: 215 VMLSLLGQHRENLLRCENFETIMDYLKTNITV 246
V + L + R+ +L E+F+ ++ L+ T+
Sbjct: 285 VCAAFLIKWRKEILDEEDFQGLLMLLQNLPTI 316
>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 = 34.3 bits (77), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 42/212 (19%), Positives = 84/212 (39%), Gaps = 32/212 (15%)
Query: 80 LGPGQLSLFN-VLKAYSLLDPEVGYCQGLSF-----------------------VAGV-- 113
L P +F +L +++ P GY QG++ V+GV
Sbjct: 122 LQPKVTEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFICEYIEAEEVDTVDVSGVPA 181
Query: 114 LLLHHSEEQAFMMLRHLMFRRGLRQTYLPDMAALQVQLYQFSRLLLDHYPDLHAHFDTHE 173
+L + E + + L+ G++ Y +Q+++ L+ +H H D HE
Sbjct: 182 EVLCNIEADTYWCMSKLL--DGIQDNYTFAQPGIQMKVKMLEELVSRIDEQVHRHLDQHE 239
Query: 174 VHPTLYAAPWLLTLFSSQFPLGFVTRVFDMVLVENPEIV---FRVMLSLLGQHRENLLRC 230
V +A W+ L + PL R++D E V + L + R+ +L
Sbjct: 240 VRYLQFAFRWMNNLLMREVPLRCTIRLWDTYQSEPDGFSHFHLYVCAAFLVRWRKEILEE 299
Query: 231 ENFETIMDYLKTNITV-MDKRTVDAIVKQVHR 261
++F+ ++ +L+ T D + ++ + +R
Sbjct: 300 KDFQELLLFLQNLPTAHWDDEDISLLLAEAYR 331
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
0.326 0.139 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,067,465
Number of Sequences: 62578
Number of extensions: 329726
Number of successful extensions: 1000
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 986
Number of HSP's gapped (non-prelim): 13
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)