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= 009915
(522 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 46/202 (22%), Positives = 87/202 (43%), Gaps = 39/202 (19%)
Query: 344 VMDSNALRKRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQ 403
+++ LR+ I + G+ R VW L+GY ++ E R K+ EY + +
Sbjct: 20 IINQQDLRQ-ISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQR--KRKEYRDSLKH-- 74
Query: 404 SISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLG 463
+ S + +R + + I+ D+ RT+ + + N L+ IL ++ + G
Sbjct: 75 TFSDQHSRDIPTWHQ----IEIDIPRTNPHIPLYQFKSVQNS--LQRILYLWAIRHPASG 128
Query: 464 YCQGMSDLLSPIL--FVMED--------------------------ESQSFWCFVALMER 495
Y QG++DL++P F+ E E+ +FWC L+E+
Sbjct: 129 YVQGINDLVTPFFETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQ 188
Query: 496 LGPNFNRDQNGMHSQLFALSKV 517
+ N+ Q G+ Q+ LS++
Sbjct: 189 ITDNYIHGQPGILRQVKNLSQL 210
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 44/194 (22%), Positives = 83/194 (42%), Gaps = 38/194 (19%)
Query: 352 KRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISPEQAR 411
++I + G+ R VW L+GY ++ E R K+ EY + + + S + +R
Sbjct: 47 RQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQR--KRKEYRDSLKH--TFSDQHSR 102
Query: 412 RFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDL 471
+ + I+ D+ RT+ + + N L+ IL ++ + GY QG++DL
Sbjct: 103 DIPTWHQ----IEIDIPRTNPHIPLYQFKSVQNS--LQRILYLWAIRHPASGYVQGINDL 156
Query: 472 LSPIL--FVMED--------------------------ESQSFWCFVALMERLGPNFNRD 503
++P F+ E E+ +FWC L+E++ N+
Sbjct: 157 VTPFFETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDNYIHG 216
Query: 504 QNGMHSQLFALSKV 517
Q G+ Q+ LS++
Sbjct: 217 QPGILRQVKNLSQL 230
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 63/162 (38%), Gaps = 28/162 (17%)
Query: 358 GVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISPEQARRFTKFR 417
GV LR EVW L G +D+ Y I TK
Sbjct: 33 GVPEALRAEVWQLLAG--CHDNQAXLDRYRILI-----------------------TKDS 67
Query: 418 ERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDLLSPILF 477
++ +I +D+ RT + +F L I YS Y+ D+GYCQG S L+ +L
Sbjct: 68 AQESVITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQS-FLAAVLL 126
Query: 478 VMEDESQSFWCFVALMERLGPN--FNRDQNGMHSQLFALSKV 517
+ E Q+F V + G + + +H + + L ++
Sbjct: 127 LHXPEEQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERL 168
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/196 (25%), Positives = 84/196 (42%), Gaps = 35/196 (17%)
Query: 346 DSNALRKRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSI 405
D + LRK + GV ++R W L GY ++ + R K+ EY Q+
Sbjct: 40 DLDELRK-CSWPGVPREVRPITWRLLSGYLPANTERRKLTLQR--KREEYFGFIEQYYDS 96
Query: 406 SPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVH-LLRDILLTYSFYNFDLGY 464
E+ + T +R+ I D+ RT+ + F P V + IL ++ + GY
Sbjct: 97 RNEEHHQDT-YRQ----IHIDIPRTNPLIPLFQ---QPLVQEIFERILFIWAIRHPASGY 148
Query: 465 CQGMSDLLSPIL------FVMED-----------------ESQSFWCFVALMERLGPNFN 501
QG++DL++P +V ED E+ SFWC L++ + N+
Sbjct: 149 VQGINDLVTPFFVVFLSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYT 208
Query: 502 RDQNGMHSQLFALSKV 517
Q G+ ++ AL ++
Sbjct: 209 FAQPGIQKKVKALEEL 224
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/175 (25%), Positives = 78/175 (44%), Gaps = 19/175 (10%)
Query: 352 KRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISP---- 407
+ +++ G+ +R +VW+ +G + + C+ ++ K +W+S+S
Sbjct: 42 RDLWWQGIPPSVRGKVWSLAIGN---ELNITHELFDICLARA-----KERWRSLSTGGSE 93
Query: 408 ---EQARRFTKFRERK-GLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLG 463
E A RE LI D+ RT ++ F P +L IL Y+ Y D+G
Sbjct: 94 VENEDAGFSAADREASLELIKLDISRTFPNLCIFQ-QGGPYHDMLHSILGAYTCYRPDVG 152
Query: 464 YCQGMSDLLSPILFVMEDESQSFWCFVALMER-LGPNFNRDQNGMHSQLFALSKV 517
Y QGMS ++ +L + D + +F F L+ + F R +G+ FA +V
Sbjct: 153 YVQGMS-FIAAVLILNLDTADAFIAFSNLLNKPCQMAFFRVDHGLMLTYFAAFEV 206
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Query: 426 DVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQS 485
D+ RT + +F P L ++L YS + ++GYCQG+S ++ +L + E Q+
Sbjct: 100 DLGRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGIS-FVAGVLLLHMSEEQA 158
Query: 486 FWCFVALMERLG--PNFNRDQNGMHSQLFALSKV 517
F LM LG + D + Q++ LS++
Sbjct: 159 FEMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRL 192
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 75/189 (39%), Gaps = 24/189 (12%)
Query: 334 WTTFLDNEGRV---MDSNALRKRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCI 390
W L GR D + + G H R E+W FL + + ++
Sbjct: 33 WEKMLSTPGRSKIKFDMEKMHSAVGQGVPRHH-RGEIWKFLAEQFHLKHQFPSKQQ---P 88
Query: 391 KKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRD 450
K Y+ + +Q S ++ I D+ RT + +F L +
Sbjct: 89 KDVPYKELLKQLTS--------------QQHAILIDLGRTFPTHPYFSAQLGAGQLSLYN 134
Query: 451 ILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLG--PNFNRDQNGMH 508
IL YS + ++GYCQG+S ++ IL + E ++F LM +G + D +
Sbjct: 135 ILKAYSLLDQEVGYCQGLS-FVAGILLLHMSEEEAFKMLKFLMFDMGLRKQYRPDMIILQ 193
Query: 509 SQLFALSKV 517
Q++ LS++
Sbjct: 194 IQMYQLSRL 202
>pdb|1GPD|G Chain G, Studies Of Asymmetry In The Three-Dimensional Structure Of
Lobster D- Glyceraldehyde-3-Phosphate Dehydrogenase
pdb|1GPD|R Chain R, Studies Of Asymmetry In The Three-Dimensional Structure Of
Lobster D- Glyceraldehyde-3-Phosphate Dehydrogenase
Length = 334
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 387 LRCIKKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVH 446
+R K+ Y++IK ++ S + F + E ++ D + +RS F D +
Sbjct: 244 VRLGKECSYDDIKAAMKTASEGPLQGFLGYTEDD-VVSSDFIGDNRSSIF---DAKAGIQ 299
Query: 447 LLRDILLTYSFYNFDLGYCQGMSDLL 472
L + + S+Y+ + GY Q + DLL
Sbjct: 300 LSKTFVKVVSWYDNEFGYSQRVIDLL 325
>pdb|4GPD|1 Chain 1, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
pdb|4GPD|2 Chain 2, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
pdb|4GPD|3 Chain 3, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
pdb|4GPD|4 Chain 4, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
Length = 333
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 387 LRCIKKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVH 446
+R K+ Y++IK ++ S + F + E ++ D + +RS F D +
Sbjct: 243 VRLGKECSYDDIKAAMKTASEGPLQGFLGYTEDD-VVSSDFIGDNRSSIF---DAKAGIQ 298
Query: 447 LLRDILLTYSFYNFDLGYCQGMSDLL 472
L + + S+Y+ + GY Q + DLL
Sbjct: 299 LSKTFVKVVSWYDNEFGYSQRVIDLL 324
>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 = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 45/218 (20%), Positives = 85/218 (38%), Gaps = 42/218 (19%)
Query: 330 GSEEWTTFLDNEGRVM-----DSNALRKRIFYGGVDHKLRREVWAFLLGYYAYDSTYAER 384
GSE + LD +++ D LR R+ + G+ +R W L GY +
Sbjct: 18 GSEREASRLDKFKQLLAGPNTDLEELR-RLSWSGIPKPVRPMTWKLLSGYLPANVDRRPA 76
Query: 385 EYLRCIKKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPN 444
R K+ EY + ++ + T +R+ I D+ R P
Sbjct: 77 TLQR--KQKEYFAFIEHYYDSRNDEVHQDT-YRQ----IHIDIPRMSPEALIL----QPK 125
Query: 445 V-HLLRDILLTYSFYNFDLGYCQGMSDLLSP--ILFVME--------------------- 480
V + IL ++ + GY QG++DL++P ++F+ E
Sbjct: 126 VTEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLC 185
Query: 481 -DESQSFWCFVALMERLGPNFNRDQNGMHSQLFALSKV 517
E+ ++WC L++ + N+ Q G+ ++ L ++
Sbjct: 186 NIEADTYWCMSKLLDGIQDNYTFAQPGIQMKVKMLEEL 223
>pdb|1QQC|A Chain A, Crystal Structure Of An Archaebacterial Dna Polymerase
D.Tok
Length = 773
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 7/71 (9%)
Query: 450 DILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRDQNG-MH 508
D+L+TY+ NFD Y + S++L + D S+ ++R+G F + G +H
Sbjct: 204 DVLITYNGDNFDFAYLKKRSEMLGVKFILGRDGSEP------KIQRMGDRFAVEVKGRIH 257
Query: 509 SQLFALSKVSL 519
L+ + + ++
Sbjct: 258 FDLYPVIRRTI 268
>pdb|1D5A|A Chain A, Crystal Structure Of An Archaebacterial Dna Polymerase
D.Tok. Deposition Of Second Native Structure At 2.4
Angstrom
Length = 733
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 7/71 (9%)
Query: 450 DILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRDQNG-MH 508
D+L+TY+ NFD Y + S++L + D S+ ++R+G F + G +H
Sbjct: 204 DVLITYNGDNFDFAYLKKRSEMLGVKFILGRDGSEP------KIQRMGDRFAVEVKGRIH 257
Query: 509 SQLFALSKVSL 519
L+ + + ++
Sbjct: 258 FDLYPVIRRTI 268
>pdb|2RHI|A Chain A, Crystal Structure Of The 3-mbt Domain From Human L3mbtl1
In Complex With H1.5k27me2 At 1.66 Angstrom
pdb|2RHX|A Chain A, Crystal Structure Of The 3-mbt Repeats From Human L3mbtl1
Bound To Dimethyl-lysine
Length = 345
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 322 GKPRQPPLGSEEWTTFLDNEGRVM 345
G P QPPLG E ++ +D+ GR++
Sbjct: 320 GHPLQPPLGPREPSSAVDSSGRIV 343
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 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,810,351
Number of Sequences: 62578
Number of extensions: 605746
Number of successful extensions: 1423
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1413
Number of HSP's gapped (non-prelim): 17
length of query: 522
length of database: 14,973,337
effective HSP length: 103
effective length of query: 419
effective length of database: 8,527,803
effective search space: 3573149457
effective search space used: 3573149457
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: 54 (25.4 bits)