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= 013576
(440 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 = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 54/104 (51%), Gaps = 1/104 (0%)
Query: 26 YTEEMIEAQVDQLVFEELIRERFPKLVHHLDYLGVQVTWISGPWFLSIFVNILPWESVLR 85
Y +MI Q+ L+ + L +HL+ + + + PWFL++F + P V R
Sbjct: 185 YRPDMIILQIQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAAPWFLTMFASQFPLGFVAR 244
Query: 86 VWDVLLYEGNRVMLFRTALALMELYGPALVTTKDAGDAITLLQS 129
V+D++ +G V +F+ AL+L+ + P ++ ++ + ++S
Sbjct: 245 VFDMIFLQGTEV-IFKVALSLLGSHKPLILQHENLETIVDFIKS 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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 41 EELIRERFPKLVHHLDYLGVQVTWISGPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLF 100
E L +E+ P L H L ++ + WFL++F P V + D+LL EG ++ F
Sbjct: 166 ERLXQEQLPDLHSHFSDLNLEAHXYASQWFLTLFTAKFPLCXVFHIIDLLLCEGLNII-F 224
Query: 101 RTALALME 108
ALAL++
Sbjct: 225 HVALALLK 232
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 44/86 (51%), Gaps = 1/86 (1%)
Query: 22 FDGYYTEEMIEAQVDQLVFEELIRERFPKLVHHLDYLGVQVTWISGPWFLSIFVNILPWE 81
F Y +M+ Q+ L+ + L +HL+ + + + PWFL++F +
Sbjct: 171 FRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSLG 230
Query: 82 SVLRVWDVLLYEGNRVMLFRTALALM 107
V RV+D++ +G V +F+ AL+L+
Sbjct: 231 FVARVFDIIFLQGTEV-IFKVALSLL 255
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 41.6 bits (96), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 40 FEELIRERFPKLVHHLDYLGVQVTWISGPWFLSIFVNILPWESVLRVWDVLLYEGNRVML 99
FE E PKL H + W +++ LP + R+WDV +G L
Sbjct: 204 FEVFFEENLPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFCRDGEE-FL 262
Query: 100 FRTALALMELY 110
FRTAL +++L+
Sbjct: 263 FRTALGILKLF 273
>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 = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/136 (23%), Positives = 59/136 (43%), Gaps = 7/136 (5%)
Query: 9 DTVRTFVGIIDDYFDGY-YTEEMIEAQVDQLVFEELIRERFPKLVH-HLDYLGVQVTWIS 66
DT ++D D Y + + I+ +V L EEL+ R + VH HLD V+ +
Sbjct: 190 DTYWCMSKLLDGIQDNYTFAQPGIQMKVKML--EELV-SRIDEQVHRHLDQHEVRYLQFA 246
Query: 67 GPWFLSIFVNILPWESVLRVWDVLLYEGNRVMLFR--TALALMELYGPALVTTKDAGDAI 124
W ++ + +P +R+WD E + F A + + ++ KD + +
Sbjct: 247 FRWMNNLLMREVPLRCTIRLWDTYQSEPDGFSHFHLYVCAAFLVRWRKEILEEKDFQELL 306
Query: 125 TLLQSLAGSTFDSSQL 140
LQ+L + +D +
Sbjct: 307 LFLQNLPTAHWDDEDI 322
>pdb|1C7N|A Chain A, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|B Chain B, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|C Chain C, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|D Chain D, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|E Chain E, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|F Chain F, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|G Chain G, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|H Chain H, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7O|A Chain A, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|B Chain B, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|C Chain C, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|D Chain D, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|E Chain E, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|F Chain F, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|G Chain G, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|H Chain H, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
Length = 399
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 12/115 (10%)
Query: 147 GYLTVTEARLQELREKHRPAVLLVVEERSKGGRVWKDPNGLATKLYSFKHDPELLIEE-- 204
GY T+ +L++L + LL + GRVWK K K D L +E
Sbjct: 147 GYYTIDFQKLEKLSKDKNNKALLFCSPHNPVGRVWKKDELQKIKDIVLKSDLMLWSDEIH 206
Query: 205 ----NKGTEGS-----DDALADGDLSYKEPAANLDEMLSGLSVNSELEGRDLQEQ 250
G E + D+ LAD +++ P+ + G+S N ++ D++E+
Sbjct: 207 FDLIMPGYEHTVFQSIDEQLADKTITFTAPSKTFNIAGMGMS-NIIIKNPDIRER 260
>pdb|1S3R|A Chain A, Crystal Structure Of The Human-Specific Toxin
Intermedilysin
pdb|1S3R|B Chain B, Crystal Structure Of The Human-Specific Toxin
Intermedilysin
Length = 535
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 25/93 (26%)
Query: 348 RYAVNVLEEK----YEKAMASVAQMEKRAVMAESMLEATLQYESGQAKAVSSP------- 396
R AVN L EK Y K A A+M+ ++ A+SM + ++ + +K V +P
Sbjct: 185 RTAVNNLVEKWIQNYSKTHAVPARMQYESISAQSMSQLQAKFGADFSK-VGAPLNVDFSS 243
Query: 397 -------------RAVHNQSSVDSPKRRIGLFG 416
R V+ +SVDSP LFG
Sbjct: 244 VHKGEKQVFIANFRQVYYTASVDSPNSPSALFG 276
>pdb|3QWL|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 7
Length = 294
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 69 WFLSIFVNILPWESVLRVWDVLLYEGNRVMLF 100
WF F LP S+ RVWD ++ ++++F
Sbjct: 207 WFKRCFAGCLPESSLQRVWDKVVSGSCKILVF 238
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
0.316 0.131 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,666,276
Number of Sequences: 62578
Number of extensions: 454011
Number of successful extensions: 1157
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1143
Number of HSP's gapped (non-prelim): 27
length of query: 440
length of database: 14,973,337
effective HSP length: 102
effective length of query: 338
effective length of database: 8,590,381
effective search space: 2903548778
effective search space used: 2903548778
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)