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= psy4079
(294 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 63/127 (49%)
Query: 130 ESNYCQGTGMIAASXXXXXXXXXAFWTLSAIVEDLLPASYYTPNLIGIQADQKVLRSLVA 189
E YCQG +A AF L ++ DL Y P+++ +Q L L+
Sbjct: 135 EVGYCQGISFVAGVLLLHMSEEQAFEMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLLH 194
Query: 190 SGLPQLELSLLQHDIELSLITLHWFLTLFASVVHFKILLRIWDLLFLDGSMVLFQITLGM 249
L L +++I SL WFLTLFAS + R++D++FL G+ V+F++ L +
Sbjct: 195 DYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSLGFVARVFDIIFLQGTEVIFKVALSL 254
Query: 250 LKIKDTI 256
L ++T+
Sbjct: 255 LSSQETL 261
>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 = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 38/121 (31%), Positives = 59/121 (48%)
Query: 130 ESNYCQGTGMIAASXXXXXXXXXAFWTLSAIVEDLLPASYYTPNLIGIQADQKVLRSLVA 189
E YCQG +A AF L ++ D+ Y P++I +Q L L+
Sbjct: 145 EVGYCQGLSFVAGILLLHMSEEEAFKMLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLH 204
Query: 190 SGLPQLELSLLQHDIELSLITLHWFLTLFASVVHFKILLRIWDLLFLDGSMVLFQITLGM 249
L L +H+I SL WFLT+FAS + R++D++FL G+ V+F++ L +
Sbjct: 205 DYHRDLYNHLEEHEIGPSLYAAPWFLTMFASQFPLGFVARVFDMIFLQGTEVIFKVALSL 264
Query: 250 L 250
L
Sbjct: 265 L 265
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 46/119 (38%)
Query: 133 YCQGTGMIAASXXXXXXXXXAFWTLSAIVEDLLPASYYTPNLIGIQADQKVLRSLVASGL 192
YCQG +AA AF L I D Y N + L L L
Sbjct: 114 YCQGQSFLAAVLLLHXPEEQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQL 173
Query: 193 PQLELSLLQHDIELSLITLHWFLTLFASVVHFKILLRIWDLLFLDGSMVLFQITLGMLK 251
P L ++E WFLTLF + + I DLL +G ++F + L +LK
Sbjct: 174 PDLHSHFSDLNLEAHXYASQWFLTLFTAKFPLCXVFHIIDLLLCEGLNIIFHVALALLK 232
>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 = 1e-04, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 51/124 (41%)
Query: 133 YCQGTGMIAASXXXXXXXXXAFWTLSAIVEDLLPASYYTPNLIGIQADQKVLRSLVASGL 192
Y QG IAA AF S ++ +++ + + L
Sbjct: 153 YVQGMSFIAAVLILNLDTADAFIAFSNLLNKPCQMAFFRVDHGLMLTYFAAFEVFFEENL 212
Query: 193 PQLELSLLQHDIELSLITLHWFLTLFASVVHFKILLRIWDLLFLDGSMVLFQITLGMLKI 252
P+L ++++ + + W TL++ + + RIWD+ DG LF+ LG+LK+
Sbjct: 213 PKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFCRDGEEFLFRTALGILKL 272
Query: 253 KDTI 256
+ I
Sbjct: 273 FEDI 276
>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 = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 2/80 (2%)
Query: 153 AFWTLSAIVEDLLPASYYTPNLIGIQADQKVLRSLVASGLPQLELSLLQHDIELSLITLH 212
+W +S +++ + YT GIQ K+L LV+ Q+ L QH++
Sbjct: 191 TYWCMSKLLDGI--QDNYTFAQPGIQMKVKMLEELVSRIDEQVHRHLDQHEVRYLQFAFR 248
Query: 213 WFLTLFASVVHFKILLRIWD 232
W L V + +R+WD
Sbjct: 249 WMNNLLMREVPLRCTIRLWD 268
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 2/80 (2%)
Query: 153 AFWTLSAIVEDLLPASYYTPNLIGIQADQKVLRSLVASGLPQLELSLLQHDIELSLITLH 212
+FW +S +++ + YT GIQ K L LV+ Q+ ++++E
Sbjct: 192 SFWCMSKLLDGI--QDNYTFAQPGIQKKVKALEELVSRIDEQVHNHFRRYEVEYLQFAFR 249
Query: 213 WFLTLFASVVHFKILLRIWD 232
W L + + +R+WD
Sbjct: 250 WMNNLLMRELPLRCTIRLWD 269
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 3/93 (3%)
Query: 3 LDTVHSRETCFIYQCTAQFCGNSSFMKRVSLVCIVGSKCAGNWPKQAIVFLNLPV--ESR 60
L + H + +YQC A + S + R + V + G + + F+ V +
Sbjct: 85 LHSRHHKPDEGLYQCEASLGDSGSIISRTAKVMVAGPLRFLSQTESITAFMGDTVLLKCE 144
Query: 61 VVGCPSKSAGNWPKQAIVFLNLPVESRVVGCPS 93
V+G P + +W K +P +SRVV PS
Sbjct: 145 VIGDPMPTI-HWQKNQQDLNPIPGDSRVVVLPS 176
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
0.325 0.139 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,968,977
Number of Sequences: 62578
Number of extensions: 293023
Number of successful extensions: 787
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 781
Number of HSP's gapped (non-prelim): 7
length of query: 294
length of database: 14,973,337
effective HSP length: 98
effective length of query: 196
effective length of database: 8,840,693
effective search space: 1732775828
effective search space used: 1732775828
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)