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= psy7828
(503 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 57/257 (22%), Positives = 100/257 (38%), Gaps = 50/257 (19%)
Query: 229 FLKKGSPRCLRGKIWCQVLGSEATPDNSKYFEQLKSSVLTYDLLIDKLTIKDVQLTASND 288
+K G P LR ++W + G DN ++ + ++T D + + +D+ T
Sbjct: 29 LVKSGVPEALRAEVWQLLAGCH---DNQAXLDRYRI-LITKDSAQESVITRDIHRTFPAH 84
Query: 289 DQYFV-----FEDLLYQILLCFSRDTEILSIFEHSSASPLYGPLKNKNTNTENLVVYPPS 343
D YF ++ LY+I +S E + G + ++ L+++ P
Sbjct: 85 D-YFKDTGGDGQESLYKICKAYSVYDEDI------------GYCQGQSFLAAVLLLHXPE 131
Query: 344 GIIPFHGFTMYATPFCYLYDDVISLYFTFRAFYLRYFYHLHQVSSNEQGILSLCILFH-- 401
FC L I + R Y F LH C +
Sbjct: 132 -----------EQAFCVLVK--IXYDYGLRDLYRNNFEDLH------------CKFYQLE 166
Query: 402 RLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHLPPDQILYLWDLILAYDSLEIISI 461
RL Q P L HF +++ +W + F+ P + ++ DL+L + L II
Sbjct: 167 RLXQEQLPDLHSHFSDLNLEAHXYASQWFLTLFTAKFPLCXVFHIIDLLLC-EGLNIIFH 225
Query: 462 LAVAILSFRRENLMQVD 478
+A+A+L +E+L+Q D
Sbjct: 226 VALALLKTSKEDLLQAD 242
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 1/86 (1%)
Query: 393 ILSLCILFHRLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHLPPDQILYLWDLILA 452
+L+ F + P+LF HFK ++ P + WI +S LP D +WD +
Sbjct: 197 MLTYFAAFEVFFEENLPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWD-VFC 255
Query: 453 YDSLEIISILAVAILSFRRENLMQVD 478
D E + A+ IL + L ++D
Sbjct: 256 RDGEEFLFRTALGILKLFEDILTKMD 281
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 4/87 (4%)
Query: 383 LHQVSSN----EQGILSLCILFHRLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHL 438
L Q++ N + GIL +L++R + L+ HF+ H+ I+ F+W+
Sbjct: 206 LEQITDNYIHGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREF 265
Query: 439 PPDQILYLWDLILAYDSLEIISILAVA 465
++ +WD L+ S E+ S +++
Sbjct: 266 QMGTVIRMWDTYLSETSQEVTSSYSMS 292
>pdb|3QWL|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 7
Length = 294
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 30/134 (22%), Positives = 60/134 (44%), Gaps = 9/134 (6%)
Query: 351 FTMYATPFCYLYDDVISLYFTFRAFYLRYFYHLHQVSSNEQGIL-SLCILFHRLLQRYEP 409
F A + +D + Y+ R F ++Q+++ + L L F + L +
Sbjct: 135 FLAIAKAMEEMVEDSVDCYWITRRF-------VNQLNTKYRDSLPQLPKAFEQYLNLEDG 187
Query: 410 QLFLHFKTIHIHPIKIVFKWIMRCFSGHLPPDQILYLWDLILAYDSLEIISILAVAILSF 469
+L H + P W RCF+G LP + +WD +++ S +I+ +AV IL
Sbjct: 188 RLLTHLRMCSAAPKLPYDLWFKRCFAGCLPESSLQRVWDKVVS-GSCKILVFVAVEILLT 246
Query: 470 RRENLMQVDTLQNV 483
+ +M +++ + +
Sbjct: 247 FKIKVMALNSAEKI 260
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 4/82 (4%)
Query: 383 LHQVSSN----EQGILSLCILFHRLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHL 438
L Q++ N + GIL +L++R + L+ HF+ H+ I+ F+W
Sbjct: 186 LEQITDNYIHGQPGILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREF 245
Query: 439 PPDQILYLWDLILAYDSLEIIS 460
++ WD L+ S E+ S
Sbjct: 246 QXGTVIRXWDTYLSETSQEVTS 267
>pdb|4DQL|A Chain A, Crystal Structure Of The Fad Binding Domain Of Cytochrome
P450 Bm3 In Complex With Nadp+
pdb|4DQL|B Chain B, Crystal Structure Of The Fad Binding Domain Of Cytochrome
P450 Bm3 In Complex With Nadp+
Length = 393
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 2/76 (2%)
Query: 330 KNTNTENLVVYPPSGIIPFHGFTMYATPFCYLYDDV--ISLYFTFRAFYLRYFYHLHQVS 387
K+ T ++V P +G+ PF GF + LYF R+ + Y Y +
Sbjct: 237 KDPETPLIMVGPGTGVAPFRGFVQARKQLKEQGQSLGEAHLYFGCRSPHEDYLYQEELEN 296
Query: 388 SNEQGILSLCILFHRL 403
+ +GI++L F R+
Sbjct: 297 AQSEGIITLHTAFSRM 312
>pdb|4DQK|A Chain A, Crystal Structure Of The Fad Binding Domain Of Cytochrome
P450 Bm3
pdb|4DQK|B Chain B, Crystal Structure Of The Fad Binding Domain Of Cytochrome
P450 Bm3
Length = 391
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 2/76 (2%)
Query: 330 KNTNTENLVVYPPSGIIPFHGFTMYATPFCYLYDDV--ISLYFTFRAFYLRYFYHLHQVS 387
K+ T ++V P +G+ PF GF + LYF R+ + Y Y +
Sbjct: 235 KDPETPLIMVGPGTGVAPFRGFVQARKQLKEQGQSLGEAHLYFGCRSPHEDYLYQEELEN 294
Query: 388 SNEQGILSLCILFHRL 403
+ +GI++L F R+
Sbjct: 295 AQSEGIITLHTAFSRM 310
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 402 RLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHLPPDQILYLWDLILAYDSLEIISI 461
RLL Y L+ H + I P W + F+ + ++D+I + E+I
Sbjct: 191 RLLHDYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSLGFVARVFDIIFLQGT-EVIFK 249
Query: 462 LAVAILSFRRENLMQVDTLQNV 483
+A+++LS + +M+ ++ +N+
Sbjct: 250 VALSLLSSQETLIMECESFENI 271
>pdb|3P5N|A Chain A, Structure And Mechanism Of The S Component Of A Bacterial
Ecf Transporter
pdb|3P5N|B Chain B, Structure And Mechanism Of The S Component Of A Bacterial
Ecf Transporter
Length = 189
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 22/41 (53%)
Query: 309 TEILSIFEHSSASPLYGPLKNKNTNTENLVVYPPSGIIPFH 349
T +LSI + PLYG + N NL V SGIIPF+
Sbjct: 124 TIVLSILNYFVLLPLYGMIFNLADIANNLKVIIVSGIIPFN 164
>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 = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 39/82 (47%), Gaps = 1/82 (1%)
Query: 402 RLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHLPPDQILYLWDLILAYDSLEIISI 461
RLL Y L+ H + I P W + F+ P + ++D+I + E+I
Sbjct: 201 RLLHDYHRDLYNHLEEHEIGPSLYAAPWFLTMFASQFPLGFVARVFDMIFLQGT-EVIFK 259
Query: 462 LAVAILSFRRENLMQVDTLQNV 483
+A+++L + ++Q + L+ +
Sbjct: 260 VALSLLGSHKPLILQHENLETI 281
>pdb|3HJH|A Chain A, A Rigid N-Terminal Clamp Restrains The Motor Domains Of
The Bacterial Transcription-Repair Coupling Factor
Length = 483
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 40/161 (24%), Positives = 63/161 (39%), Gaps = 12/161 (7%)
Query: 68 NSWAEPLTYLRKAQFQWEKRIQKSLNSMCNEIGIQLSRFRLPSDRDDMKDKWTELSTYEV 127
N +P+ L Q W R+ + + + N +QL LP+ + + +L V
Sbjct: 305 NRGVDPMRPLLPPQSLW-LRVDELFSELKNWPRVQLKTEHLPTKAANANLGFQKLPDLAV 363
Query: 128 DLTQYRPVYAPKDFLE-----VLISLKSSNYRSVEGEGSWDFTQIPLKIKSLSELRQLYK 182
Q P+ A + FLE V+ S++S R GE P +I L E +
Sbjct: 364 QAQQKAPLDALRKFLETFDGPVVFSVESEGRREALGELLARIKIAPQRIMRLDEASDRGR 423
Query: 183 ELARGESVIGTNSYNNPNPYFN-ALESERITLGEKVLNSKH 222
L +IG + + N AL E LGE+V +
Sbjct: 424 YL-----MIGAAEHGFVDTVRNLALICESDLLGERVARRRQ 459
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 40/161 (24%), Positives = 63/161 (39%), Gaps = 12/161 (7%)
Query: 68 NSWAEPLTYLRKAQFQWEKRIQKSLNSMCNEIGIQLSRFRLPSDRDDMKDKWTELSTYEV 127
N +P+ L Q W R+ + + + N +QL LP+ + + +L V
Sbjct: 308 NRGVDPMRPLLPPQSLW-LRVDELFSELKNWPRVQLKTEHLPTKAANANLGFQKLPDLAV 366
Query: 128 DLTQYRPVYAPKDFLE-----VLISLKSSNYRSVEGEGSWDFTQIPLKIKSLSELRQLYK 182
Q P+ A + FLE V+ S++S R GE P +I L E +
Sbjct: 367 QAQQKAPLDALRKFLETFDGPVVFSVESEGRREALGELLARIKIAPQRIMRLDEASDRGR 426
Query: 183 ELARGESVIGTNSYNNPNPYFN-ALESERITLGEKVLNSKH 222
L +IG + + N AL E LGE+V +
Sbjct: 427 YL-----MIGAAEHGFVDTVRNLALICESDLLGERVARRRQ 462
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 24/57 (42%)
Query: 392 GILSLCILFHRLLQRYEPQLFLHFKTIHIHPIKIVFKWIMRCFSGHLPPDQILYLWD 448
GI L+ R + Q+ HF+ + ++ F+W+ LP + LWD
Sbjct: 213 GIQKKVKALEELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWD 269
>pdb|4CGT|A Chain A, Deletion Mutant Delta(145-150), F151d Of Cyclodextrin
Glycosyltransferase
Length = 678
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 161 SWDFTQIPLKIKSLSELRQLYKELARGESVIGTNSYNNPNPYFNALESERITLGEKVLNS 220
SW+ TQI + I S++ K A G + +N+YNN F L +++T+ V+N+
Sbjct: 536 SWEDTQIKVTIPSVAAGNYAVKVAASG---VNSNAYNN----FTILTGDQVTV-RFVVNN 587
Query: 221 KHAPVAQEFLKKGS 234
+ Q G+
Sbjct: 588 ASTTLGQNLYLTGN 601
>pdb|8CGT|A Chain A, Structure Of Cyclodextrin Glycosyltransferase Complexed
With A Thio-Maltohexaose
pdb|9CGT|A Chain A, Structure Of Cyclodextrin Glycosyltransferase Complexed
With A Thio-Maltopentaose
pdb|3CGT|A Chain A, Structure Of Cyclodextrin Glycosyltransferase Complexed
With Its Main Product Beta-Cyclodextrin
Length = 684
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 161 SWDFTQIPLKIKSLSELRQLYKELARGESVIGTNSYNNPNPYFNALESERITLGEKVLNS 220
SW+ TQI + I S++ K A G + +N+YNN F L +++T+ V+N+
Sbjct: 542 SWEDTQIKVTIPSVAAGNYAVKVAASG---VNSNAYNN----FTILTGDQVTV-RFVVNN 593
Query: 221 KHAPVAQEFLKKGS 234
+ Q G+
Sbjct: 594 ASTTLGQNLYLTGN 607
>pdb|1CGT|A Chain A, Structure Of Cyclodextrin Glycosyltransferase Refined At
2.0 Angstroms Resolution
Length = 684
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 161 SWDFTQIPLKIKSLSELRQLYKELARGESVIGTNSYNNPNPYFNALESERITLGEKVLNS 220
SW+ TQI + I S++ K A G + +N+YNN F L +++T+ V+N+
Sbjct: 542 SWEDTQIKVTIPSVAAGNYAVKVAASG---VNSNAYNN----FTILTGDQVTV-RFVVNN 593
Query: 221 KHAPVAQEFLKKGS 234
+ Q G+
Sbjct: 594 ASTTLGQNLYLTGN 607
>pdb|1CGU|A Chain A, Catalytic Center Of Cyclodextrin Glycosyltransferase
Derived From X-Ray Structure Analysis Combined With
Site- Directed Mutagenesis
pdb|5CGT|A Chain A, Maltotriose Complex Of Preconditioned Cyclodextrin
Glycosyltransferase Mutant
pdb|7CGT|A Chain A, Rameb Complex Of Cyclodextrin Glycosyltransferase Mutant
Length = 684
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 161 SWDFTQIPLKIKSLSELRQLYKELARGESVIGTNSYNNPNPYFNALESERITLGEKVLNS 220
SW+ TQI + I S++ K A G + +N+YNN F L +++T+ V+N+
Sbjct: 542 SWEDTQIKVTIPSVAAGNYAVKVAASG---VNSNAYNN----FTILTGDQVTV-RFVVNN 593
Query: 221 KHAPVAQEFLKKGS 234
+ Q G+
Sbjct: 594 ASTTLGQNLYLTGN 607
>pdb|6CGT|A Chain A, Hoxa Complex Of Cyclodextrin Glycosyltransferase Mutant
Length = 684
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 161 SWDFTQIPLKIKSLSELRQLYKELARGESVIGTNSYNNPNPYFNALESERITLGEKVLNS 220
SW+ TQI + I S++ K A G + +N+YNN F L +++T+ V+N+
Sbjct: 542 SWEDTQIKVTIPSVAAGNYAVKVAASG---VNSNAYNN----FTILTGDQVTV-RFVVNN 593
Query: 221 KHAPVAQEFLKKGS 234
+ Q G+
Sbjct: 594 ASTTLGQNLYLTGN 607
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
0.323 0.139 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,191,468
Number of Sequences: 62578
Number of extensions: 620533
Number of successful extensions: 1201
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1188
Number of HSP's gapped (non-prelim): 25
length of query: 503
length of database: 14,973,337
effective HSP length: 103
effective length of query: 400
effective length of database: 8,527,803
effective search space: 3411121200
effective search space used: 3411121200
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)