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= psy3328
(337 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 = 98.6 bits (244), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 61/207 (29%), Positives = 108/207 (52%), Gaps = 15/207 (7%)
Query: 54 LNNKILDPDIG------------ETIRTDLPRTFPENIFFRNSLEHQQ-QLSRILKVFAL 100
L NK PDI I DL RTFP + +F L Q L +LK ++L
Sbjct: 72 LPNKQQPPDISYKELLKQLTAQQHAILVDLGRTFPTHPYFSVQLGPGQLSLFNLLKAYSL 131
Query: 101 DEKNIGYCQGLNYIAALILLVTKHEENTYWIFRSVI-NKYFSDYYTKTLTGVVRDIDVLS 159
+K +GYCQG++++A +LL+ EE + + + ++ + F Y + + + LS
Sbjct: 132 LDKEVGYCQGISFVAG-VLLLHMSEEQAFEMLKFLMYDLGFRKQYRPDMMSLQIQMYQLS 190
Query: 160 ELVKIKMPHLYDHISKVGVPWPVIATKWFICMFADVLPVETVLRIWDCLFVEGPKILFRV 219
L+ LY+H+ + + + A WF+ +FA + V R++D +F++G +++F+V
Sbjct: 191 RLLHDYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSLGFVARVFDIIFLQGTEVIFKV 250
Query: 220 SLTLIKLHERALLECEDFTTLVECFKS 246
+L+L+ E ++ECE F +VE K+
Sbjct: 251 ALSLLSSQETLIMECESFENIVEFLKN 277
>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 = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 56/182 (30%), Positives = 100/182 (54%), Gaps = 1/182 (0%)
Query: 66 TIRTDLPRTFPENIFFRNSLEHQQ-QLSRILKVFALDEKNIGYCQGLNYIAALILLVTKH 124
I DL RTFP + +F L Q L ILK ++L ++ +GYCQGL+++A ++LL
Sbjct: 106 AILIDLGRTFPTHPYFSAQLGAGQLSLYNILKAYSLLDQEVGYCQGLSFVAGILLLHMSE 165
Query: 125 EENTYWIFRSVINKYFSDYYTKTLTGVVRDIDVLSELVKIKMPHLYDHISKVGVPWPVIA 184
EE + + + Y + + + LS L+ LY+H+ + + + A
Sbjct: 166 EEAFKMLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYA 225
Query: 185 TKWFICMFADVLPVETVLRIWDCLFVEGPKILFRVSLTLIKLHERALLECEDFTTLVECF 244
WF+ MFA P+ V R++D +F++G +++F+V+L+L+ H+ +L+ E+ T+V+
Sbjct: 226 APWFLTMFASQFPLGFVARVFDMIFLQGTEVIFKVALSLLGSHKPLILQHENLETIVDFI 285
Query: 245 KS 246
KS
Sbjct: 286 KS 287
>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 = 89.4 bits (220), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 54/181 (29%), Positives = 97/181 (53%), Gaps = 4/181 (2%)
Query: 67 IRTDLPRTFPENIFFRNSL-EHQQQLSRILKVFALDEKNIGYCQGLNYIAALILLVTKHE 125
I D+ RTFP + +F+++ + Q+ L +I K +++ +++IGYCQG +++AA +LL+ E
Sbjct: 73 ITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQSFLAA-VLLLHXPE 131
Query: 126 ENTYWIFRSVINKY-FSDYYTKTLTGVVRDIDVLSELVKIKMPHLYDHISKVGVPWPVIA 184
E + + + Y D Y + L L + ++P L+ H S + + A
Sbjct: 132 EQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPDLHSHFSDLNLEAHXYA 191
Query: 185 TKWFICMFADVLPVETVLRIWDCLFVEGPKILFRVSLTLIKLHERALLECEDFTTLVECF 244
++WF+ +F P+ V I D L EG I+F V+L L+K + LL+ DF ++ F
Sbjct: 192 SQWFLTLFTAKFPLCXVFHIIDLLLCEGLNIIFHVALALLKTSKEDLLQA-DFEGALKFF 250
Query: 245 K 245
+
Sbjct: 251 R 251
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 74.7 bits (182), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 51/209 (24%), Positives = 95/209 (45%), Gaps = 19/209 (9%)
Query: 34 LKKVTHQTRHYGTGGYYAFMLNNKILDPDIG----------ETIRTDLPRTFPENIFFRN 83
L + + R TGG +++ + D G E I+ D+ RTFP F+
Sbjct: 77 LARAKERWRSLSTGG-------SEVENEDAGFSAADREASLELIKLDISRTFPNLCIFQQ 129
Query: 84 SLEHQQQLSRILKVFALDEKNIGYCQGLNYIAALILLVTKHEENTYWIFRSVINKYFSDY 143
+ L IL + ++GY QG+++IAA +L++ + + F +++NK
Sbjct: 130 GGPYHDMLHSILGAYTCYRPDVGYVQGMSFIAA-VLILNLDTADAFIAFSNLLNKPCQMA 188
Query: 144 YTKTLTGVVRDIDVLSELV-KIKMPHLYDHISKVGVPWPVIATKWFICMFADVLPVETVL 202
+ + G++ E+ + +P L+ H K + + W +++ LP++
Sbjct: 189 FFRVDHGLMLTYFAAFEVFFEENLPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLAC 248
Query: 203 RIWDCLFVEGPKILFRVSLTLIKLHERAL 231
RIWD +G + LFR +L ++KL E L
Sbjct: 249 RIWDVFCRDGEEFLFRTALGILKLFEDIL 277
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 69/173 (39%), Gaps = 30/173 (17%)
Query: 67 IRTDLPRTFPENIFFRNSLEHQQQLSRILKVFALDEKNIGYCQGLNYIAALIL------- 119
I D+PRT P +I Q L RIL ++A+ GY QG+N +
Sbjct: 110 IEIDIPRTNP-HIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFETFLTEY 168
Query: 120 ---------------------LVTKHEENTYWIFRSVINKYFSDYYTKTLTGVVRDIDVL 158
+T E +T+W ++ + +D Y G++R + L
Sbjct: 169 LPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQ-ITDNYIHGQPGILRQVKNL 227
Query: 159 SELVKIKMPHLYDHISKVGVPWPVIATKWFICMFADVLPVETVLRIWDCLFVE 211
S+LVK LY+H V + A +W C+ + TV+R+WD E
Sbjct: 228 SQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMGTVIRMWDTYLSE 280
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/213 (23%), Positives = 86/213 (40%), Gaps = 30/213 (14%)
Query: 62 DIGETIRTDLPRTFPENIFFRNSLEHQQQLSRILKVFALDEKNIGYCQGLNYIAALILLV 121
D I D+PRT P F+ L Q+ RIL ++A+ GY QG+N + +V
Sbjct: 104 DTYRQIHIDIPRTNPLIPLFQQPLV-QEIFERILFIWAIRHPASGYVQGINDLVTPFFVV 162
Query: 122 -----------------------TKHEENTYWIFRSVINKYFSDYYTKTLTGVVRDIDVL 158
E +++W +++ D YT G+ + + L
Sbjct: 163 FLSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDG-IQDNYTFAQPGIQKKVKAL 221
Query: 159 SELVKIKMPHLYDHISKVGVPWPVIATKWFICMFADVLPVETVLRIWDCLFVEGPKI--- 215
ELV +++H + V + A +W + LP+ +R+WD E
Sbjct: 222 EELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWDTYQSEPEGFSHF 281
Query: 216 -LFRVSLTLIKLHERALLECEDFTTLVECFKSM 247
L+ + LIK + +L+ EDF L+ +++
Sbjct: 282 HLYVCAAFLIKWR-KEILDEEDFQGLLMLLQNL 313
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 67/173 (38%), Gaps = 30/173 (17%)
Query: 67 IRTDLPRTFPENIFFRNSLEHQQQLSRILKVFALDEKNIGYCQGLNYIAALIL------- 119
I D+PRT P +I Q L RIL ++A+ GY QG+N +
Sbjct: 90 IEIDIPRTNP-HIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFETFLTEY 148
Query: 120 ---------------------LVTKHEENTYWIFRSVINKYFSDYYTKTLTGVVRDIDVL 158
+T E +T+W ++ + +D Y G++R + L
Sbjct: 149 LPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQ-ITDNYIHGQPGILRQVKNL 207
Query: 159 SELVKIKMPHLYDHISKVGVPWPVIATKWFICMFADVLPVETVLRIWDCLFVE 211
S+LVK LY+H V + A +W C+ TV+R WD E
Sbjct: 208 SQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREFQXGTVIRXWDTYLSE 260
>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 = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 93/226 (41%), Gaps = 37/226 (16%)
Query: 49 YYAFMLN-----NKILDPDIGETIRTDLPRTFPENIFFRNSLEHQQQLSRILKVFALDEK 103
Y+AF+ + N + D I D+PR PE + + + + RIL ++A+
Sbjct: 85 YFAFIEHYYDSRNDEVHQDTYRQIHIDIPRMSPEALILQPKV--TEIFERILFIWAIRHP 142
Query: 104 NIGYCQGLN-------------YIAALIL-----------LVTKHEENTYWIFRSVINKY 139
GY QG+N YI A + ++ E +TYW +++
Sbjct: 143 ASGYVQGINDLVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDG- 201
Query: 140 FSDYYTKTLTGVVRDIDVLSELVKIKMPHLYDHISKVGVPWPVIATKWFICMFADVLPVE 199
D YT G+ + +L ELV ++ H+ + V + A +W + +P+
Sbjct: 202 IQDNYTFAQPGIQMKVKMLEELVSRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVPLR 261
Query: 200 TVLRIWDCLFVEGPKI----LFRVSLTLIKLHERALLECEDFTTLV 241
+R+WD E L+ + L++ + +LE +DF L+
Sbjct: 262 CTIRLWDTYQSEPDGFSHFHLYVCAAFLVRWR-KEILEEKDFQELL 306
>pdb|3QWL|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 7
Length = 294
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 127 NTYWIFRSVINKYFSDYYTKTLTGVVRDIDVLSELVKIKMPHLYDHISKVGVPWPVIATK 186
+ YWI R +N+ + Y +L + + + + ++ L H+ +
Sbjct: 151 DCYWITRRFVNQ-LNTKYRDSLPQLPK---AFEQYLNLEDGRLLTHLRMCSAAPKLPYDL 206
Query: 187 WFICMFADVLPVETVLRIWDCLFVEGPKILFRVSLTLI---KLHERALLECEDFTTLVE 242
WF FA LP ++ R+WD + KIL V++ ++ K+ AL E T +E
Sbjct: 207 WFKRCFAGCLPESSLQRVWDKVVSGSCKILVFVAVEILLTFKIKVMALNSAEKITKFLE 265
>pdb|2E84|A Chain A, Crystal Structure Of High-Molecular Weight Cytochrome C
From Desulfovibrio Vulgaris (Miyazaki F) In The Presence
Of Zinc Ion
Length = 556
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 228 ERALLECEDFTTLVECFKSMVRSPAVLNCHSFM 260
E+A+ + + + V C V++PA CH FM
Sbjct: 345 EKAMHQPDSMKSCVGCHNQKVQAPACAGCHGFM 377
>pdb|1A3Y|B Chain B, Odorant Binding Protein From Nasal Mucosa Of Pig
pdb|1A3Y|A Chain A, Odorant Binding Protein From Nasal Mucosa Of Pig
Length = 149
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 54/119 (45%), Gaps = 12/119 (10%)
Query: 52 FMLNNKILDPDIGETIRTDLPRTFPENIFFRNSLEHQQQLSRI-LKVFALDEKNIGYCQG 110
F L+ K + IG + + P +F R S+E + S++ L F+ K G C+
Sbjct: 2 FELSGKWITSYIGSSDLEKIGENAPFQVFMR-SIEFDDKESKVYLNFFS---KENGICE- 56
Query: 111 LNYIAALILLVTKHEENTYWIFRSVINKYFSDYYTKTLTGVVRDIDVLSELVKIKMPHL 169
L+ TK E NTY + + NK+ Y ++T ++ +I+V E K M L
Sbjct: 57 -----EFSLIGTKQEGNTYDVNYAGNNKFVVSYASETAL-IISNINVDEEGDKTIMTGL 109
>pdb|4ACQ|A Chain A, Alpha-2 Macroglobulin
pdb|4ACQ|B Chain B, Alpha-2 Macroglobulin
pdb|4ACQ|C Chain C, Alpha-2 Macroglobulin
pdb|4ACQ|D Chain D, Alpha-2 Macroglobulin
Length = 1451
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 14/80 (17%)
Query: 75 FPENIFFRNSLEHQQQLSRILKVFALDEKNIGYCQGLNYIAALILLVTKHEENTYWIF-- 132
F NI+ + L QQL+ +K A+ N GY + LNY KH + +Y F
Sbjct: 957 FAPNIYVLDYLNETQQLTPEIKSKAIGYLNTGYQRQLNY---------KHYDGSYSTFGE 1007
Query: 133 ---RSVINKYFSDYYTKTLT 149
R+ N + + + KT
Sbjct: 1008 RYGRNQGNTWLTAFVLKTFA 1027
>pdb|1DZJ|A Chain A, Porcine Odorant Binding Protein Complexed With
2-Amino-4-Butyl-5-Propylselenazole
pdb|1DZJ|B Chain B, Porcine Odorant Binding Protein Complexed With
2-Amino-4-Butyl-5-Propylselenazole
pdb|1DZK|A Chain A, Porcine Odorant Binding Protein Complexed With Pyrazine
(2-Isobutyl-3-Metoxypyrazine)
pdb|1DZK|B Chain B, Porcine Odorant Binding Protein Complexed With Pyrazine
(2-Isobutyl-3-Metoxypyrazine)
pdb|1DZM|A Chain A, Porcine Odorant Binding Protein Complexed With Benzoic
Acid Phenylmethylester
pdb|1DZM|B Chain B, Porcine Odorant Binding Protein Complexed With Benzoic
Acid Phenylmethylester
pdb|1DZP|A Chain A, Porcine Odorant Binding Protein Complexed With
Diphenylmethanone
pdb|1DZP|B Chain B, Porcine Odorant Binding Protein Complexed With
Diphenylmethanone
pdb|1E00|A Chain A, Porcine Odorant Binding Protein Complexed With
2,6-Dimethyl- 7-Octen-2-Ol
pdb|1E00|B Chain B, Porcine Odorant Binding Protein Complexed With
2,6-Dimethyl- 7-Octen-2-Ol
pdb|1E02|A Chain A, Porcine Odorant Binding Protein Complexed With Undecanal
pdb|1E02|B Chain B, Porcine Odorant Binding Protein Complexed With Undecanal
pdb|1E06|A Chain A, Porcine Odorant Binding Protein Complexed With 5-Methyl-2-
(1-Methylethyl)phenol
pdb|1E06|B Chain B, Porcine Odorant Binding Protein Complexed With 5-Methyl-2-
(1-Methylethyl)phenol
pdb|1HQP|A Chain A, Crystal Structure Of A Truncated Form Of Porcine Odorant-
Binding Protein
Length = 157
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 54/119 (45%), Gaps = 12/119 (10%)
Query: 52 FMLNNKILDPDIGETIRTDLPRTFPENIFFRNSLEHQQQLSRI-LKVFALDEKNIGYCQG 110
F L+ K + IG + + P +F R S+E + S++ L F+ K G C+
Sbjct: 10 FELSGKWITSYIGSSDLEKIGENAPFQVFMR-SIEFDDKESKVYLNFFS---KENGICE- 64
Query: 111 LNYIAALILLVTKHEENTYWIFRSVINKYFSDYYTKTLTGVVRDIDVLSELVKIKMPHL 169
L+ TK E NTY + + NK+ Y ++T ++ +I+V E K M L
Sbjct: 65 -----EFSLIGTKQEGNTYDVNYAGNNKFVVSYASETAL-IISNINVDEEGDKTIMTGL 117
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 0.140 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,584,822
Number of Sequences: 62578
Number of extensions: 382741
Number of successful extensions: 966
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 939
Number of HSP's gapped (non-prelim): 23
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
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: 52 (24.6 bits)