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= 006618
(638 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 95.5 bits (236), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 84/290 (28%), Positives = 133/290 (45%), Gaps = 45/290 (15%)
Query: 326 DSNALRKRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSI 385
D + LRK + GV ++R W L GY ++ R+ K+ EY Q+
Sbjct: 40 DLDELRK-CSWPGVPREVRPITWRLLSGYLPANT--ERRKLTLQRKREEYFGFIEQYYDS 96
Query: 386 SPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVH-LLRDILLTYSFYNFDLGY 444
E+ + T +R+ I D+ RT+ + F P V + IL ++ + GY
Sbjct: 97 RNEEHHQDT-YRQ----IHIDIPRTNPLIPLFQ---QPLVQEIFERILFIWAIRHPASGY 148
Query: 445 CQGMSDLLSPIL------FVMED-----------------ESQSFWCFVALMERLGPNFN 481
QG++DL++P +V ED E+ SFWC L++ + N+
Sbjct: 149 VQGINDLVTPFFVVFLSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYT 208
Query: 482 RDQNGMHSQLFALSKLVELLDNPLHNYFKQNDCLNYFFCFRWVLIQFKREFEYEKTMRLW 541
Q G+ ++ AL +LV +D +HN+F++ + F FRW+ RE T+RLW
Sbjct: 209 FAQPGIQKKVKALEELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLW 268
Query: 542 EVLWTHYLSE-----HLHLYVCVAILKRYRNKIMGEQMDFDTLLKFINEL 586
+ Y SE H HLYVC A L ++R +I+ E+ DF LL + L
Sbjct: 269 DT----YQSEPEGFSHFHLYVCAAFLIKWRKEILDEE-DFQGLLMLLQNL 313
>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 = 83.6 bits (205), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 73/285 (25%), Positives = 122/285 (42%), Gaps = 46/285 (16%)
Query: 332 KRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISPEQAR 391
+R+ + G+ +R W L GY + R K+ EY + ++
Sbjct: 44 RRLSWSGIPKPVRPMTWKLLSGYLPANVDRRPATLQR--KQKEYFAFIEHYYDSRNDEVH 101
Query: 392 RFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNV-HLLRDILLTYSFYNFDLGYCQGMSD 450
+ T +R+ I D+ R P V + IL ++ + GY QG++D
Sbjct: 102 QDT-YRQ----IHIDIPRMSPEALIL----QPKVTEIFERILFIWAIRHPASGYVQGIND 152
Query: 451 LLSP--ILFVME----------------------DESQSFWCFVALMERLGPNFNRDQNG 486
L++P ++F+ E E+ ++WC L++ + N+ Q G
Sbjct: 153 LVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDGIQDNYTFAQPG 212
Query: 487 MHSQLFALSKLVELLDNPLHNYFKQNDCLNYFFCFRWVLIQFKREFEYEKTMRLWEVLWT 546
+ ++ L +LV +D +H + Q++ F FRW+ RE T+RLW+
Sbjct: 213 IQMKVKMLEELVSRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVPLRCTIRLWDT--- 269
Query: 547 HYLSE-----HLHLYVCVAILKRYRNKIMGEQMDFDTLLKFINEL 586
Y SE H HLYVC A L R+R +I+ E+ DF LL F+ L
Sbjct: 270 -YQSEPDGFSHFHLYVCAAFLVRWRKEIL-EEKDFQELLLFLQNL 312
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 79.3 bits (194), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 65/249 (26%), Positives = 115/249 (46%), Gaps = 44/249 (17%)
Query: 332 KRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISPEQAR 391
++I + G+ R VW L+GY ++ E R K+ EY + + + S + +R
Sbjct: 47 RQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQR--KRKEYRDSLKH--TFSDQHSR 102
Query: 392 RFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDL 451
+ + I+ D+ RT+ + + N L+ IL ++ + GY QG++DL
Sbjct: 103 DIPTWHQ----IEIDIPRTNPHIPLYQFKSVQNS--LQRILYLWAIRHPASGYVQGINDL 156
Query: 452 LSPIL--FVMED--------------------------ESQSFWCFVALMERLGPNFNRD 483
++P F+ E E+ +FWC L+E++ N+
Sbjct: 157 VTPFFETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDNYIHG 216
Query: 484 QNGMHSQLFALSKLVELLDNPLHNYFKQNDCLNYF-FCFRWVLIQFKREFEYEKTMRLWE 542
Q G+ Q+ LS+LV+ +D L+N+F QN+ + + F FRW+ REF+ +R+W+
Sbjct: 217 QPGILRQVKNLSQLVKRIDADLYNHF-QNEHVEFIQFAFRWMNCLLMREFQMGTVIRMWD 275
Query: 543 VLWTHYLSE 551
YLSE
Sbjct: 276 T----YLSE 280
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 65/249 (26%), Positives = 113/249 (45%), Gaps = 44/249 (17%)
Query: 332 KRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISPEQAR 391
++I + G+ R VW L+GY ++ E R K+ EY + + + S + +R
Sbjct: 27 RQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQR--KRKEYRDSLKH--TFSDQHSR 82
Query: 392 RFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDL 451
+ + I+ D+ RT+ + + N L+ IL ++ + GY QG++DL
Sbjct: 83 DIPTWHQ----IEIDIPRTNPHIPLYQFKSVQNS--LQRILYLWAIRHPASGYVQGINDL 136
Query: 452 LSPIL--FVMED--------------------------ESQSFWCFVALMERLGPNFNRD 483
++P F+ E E+ +FWC L+E++ N+
Sbjct: 137 VTPFFETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQITDNYIHG 196
Query: 484 QNGMHSQLFALSKLVELLDNPLHNYFKQNDCLNYF-FCFRWVLIQFKREFEYEKTMRLWE 542
Q G+ Q+ LS+LV+ +D L+N+F QN+ + + F FRW REF+ +R W+
Sbjct: 197 QPGILRQVKNLSQLVKRIDADLYNHF-QNEHVEFIQFAFRWXNCLLXREFQXGTVIRXWD 255
Query: 543 VLWTHYLSE 551
YLSE
Sbjct: 256 T----YLSE 260
>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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 61/247 (24%), Positives = 101/247 (40%), Gaps = 32/247 (12%)
Query: 338 GVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISPEQARRFTKFR 397
GV LR EVW L G +D+ Y I TK
Sbjct: 33 GVPEALRAEVWQLLAG--CHDNQAXLDRYRILI-----------------------TKDS 67
Query: 398 ERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDLLSPILF 457
++ +I +D+ RT + +F L I YS Y+ D+GYCQG S L+ +L
Sbjct: 68 AQESVITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQGQS-FLAAVLL 126
Query: 458 VMEDESQSFWCFVALMERLGPN--FNRDQNGMHSQLFALSKLVELLDNPLHNYFKQNDCL 515
+ E Q+F V + G + + +H + + L +L + LH++F +
Sbjct: 127 LHXPEEQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPDLHSHFSDLNLE 186
Query: 516 NYFFCFRWVLIQFKREFEYEKTMRLWEVLWTHYLSEHLHLYVCVAILKRYRNKIMGEQMD 575
+ + +W L F +F + ++L L+ H V +A+LK + ++ Q D
Sbjct: 187 AHXYASQWFLTLFTAKFPLCXVFHIIDLLLCEGLNIIFH--VALALLKTSKEDLL--QAD 242
Query: 576 FDTLLKF 582
F+ LKF
Sbjct: 243 FEGALKF 249
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 55.8 bits (133), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 61/265 (23%), Positives = 115/265 (43%), Gaps = 24/265 (9%)
Query: 332 KRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYENIKRQWQSISP---- 387
+ +++ G+ +R +VW+ +G + + C+ ++ K +W+S+S
Sbjct: 42 RDLWWQGIPPSVRGKVWSLAIGN---ELNITHELFDICLARA-----KERWRSLSTGGSE 93
Query: 388 ---EQARRFTKFRERK-GLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLG 443
E A RE LI D+ RT ++ F P +L IL Y+ Y D+G
Sbjct: 94 VENEDAGFSAADREASLELIKLDISRTFPNLCIFQ-QGGPYHDMLHSILGAYTCYRPDVG 152
Query: 444 YCQGMSDLLSPILFVMEDESQSFWCFVALMER-LGPNFNRDQNGMHSQLFALSKLVELLD 502
Y QGMS ++ +L + D + +F F L+ + F R +G+ FA ++ +
Sbjct: 153 YVQGMS-FIAAVLILNLDTADAFIAFSNLLNKPCQMAFFRVDHGLMLTYFAAFEVFFEEN 211
Query: 503 NP-LHNYFKQNDCLNYFFCFRWVLIQFKREFEYEKTMRLWEVLWTHYLSEHLHLYVCVAI 561
P L +FK+N+ + W+ + + + R+W+V E + I
Sbjct: 212 LPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFCRD--GEEFLFRTALGI 269
Query: 562 LKRYRNKIMGEQMDFDTLLKFINEL 586
LK + + + +MDF + +F+ L
Sbjct: 270 LKLFEDIL--TKMDFIHMAQFLTRL 292
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 43/181 (23%), Positives = 85/181 (46%), Gaps = 6/181 (3%)
Query: 406 DVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQS 465
D+ RT + +F P L ++L YS + ++GYCQG+S ++ +L + E Q+
Sbjct: 100 DLGRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGIS-FVAGVLLLHMSEEQA 158
Query: 466 FWCFVALMERLG--PNFNRDQNGMHSQLFALSKLVELLDNPLHNYFKQNDCLNYFFCFRW 523
F LM LG + D + Q++ LS+L+ L+N+ ++N+ + W
Sbjct: 159 FEMLKFLMYDLGFRKQYRPDMMSLQIQMYQLSRLLHDYHRDLYNHLEENEISPSLYAAPW 218
Query: 524 VLIQFKREFEYEKTMRLWEVLWTHYLSEHLHLYVCVAILKRYRNKIMGEQMDFDTLLKFI 583
L F +F R++++++ + V +++L IM E F+ +++F+
Sbjct: 219 FLTLFASQFSLGFVARVFDIIFLQ--GTEVIFKVALSLLSSQETLIM-ECESFENIVEFL 275
Query: 584 N 584
Sbjct: 276 K 276
>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 = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 56/276 (20%), Positives = 116/276 (42%), Gaps = 27/276 (9%)
Query: 314 WTTFLDNEGRV---MDSNALRKRIFYGGVDHKLRREVWAFLLGYYAYDSTYAEREYLRCI 370
W L GR D + + G H R E+W FL + + ++ + +
Sbjct: 33 WEKMLSTPGRSKIKFDMEKMHSAVGQGVPRHH-RGEIWKFLAEQFHLKHQFPSKQQPKDV 91
Query: 371 KKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRD 430
Y+ + +Q S ++ I D+ RT + +F L +
Sbjct: 92 P---YKELLKQLTS--------------QQHAILIDLGRTFPTHPYFSAQLGAGQLSLYN 134
Query: 431 ILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLG--PNFNRDQNGMH 488
IL YS + ++GYCQG+S ++ IL + E ++F LM +G + D +
Sbjct: 135 ILKAYSLLDQEVGYCQGLS-FVAGILLLHMSEEEAFKMLKFLMFDMGLRKQYRPDMIILQ 193
Query: 489 SQLFALSKLVELLDNPLHNYFKQNDCLNYFFCFRWVLIQFKREFEYEKTMRLWEVLWTHY 548
Q++ LS+L+ L+N+ ++++ + W L F +F R++++++
Sbjct: 194 IQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAAPWFLTMFASQFPLGFVARVFDMIFLQ- 252
Query: 549 LSEHLHLYVCVAILKRYRNKIMGEQMDFDTLLKFIN 584
+ V +++L ++ I+ + + +T++ FI
Sbjct: 253 -GTEVIFKVALSLLGSHKPLILQHE-NLETIVDFIK 286
>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 = 0.43, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 367 LRCIKKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVH 426
+R K+ Y++IK ++ S + F + E ++ D + +RS F D +
Sbjct: 244 VRLGKECSYDDIKAAMKTASEGPLQGFLGYTEDD-VVSSDFIGDNRSSIF---DAKAGIQ 299
Query: 427 LLRDILLTYSFYNFDLGYCQGMSDLL 452
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 = 0.43, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 367 LRCIKKSEYENIKRQWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVH 426
+R K+ Y++IK ++ S + F + E ++ D + +RS F D +
Sbjct: 243 VRLGKECSYDDIKAAMKTASEGPLQGFLGYTEDD-VVSSDFIGDNRSSIF---DAKAGIQ 298
Query: 427 LLRDILLTYSFYNFDLGYCQGMSDLL 452
L + + S+Y+ + GY Q + DLL
Sbjct: 299 LSKTFVKVVSWYDNEFGYSQRVIDLL 324
>pdb|2GV9|A Chain A, Crystal Structure Of The Herpes Simplex Virus Type 1 Dna
Polymerase
pdb|2GV9|B Chain B, Crystal Structure Of The Herpes Simplex Virus Type 1 Dna
Polymerase
Length = 1193
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 10/83 (12%)
Query: 440 FDLGYCQ---------GMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRDQNGMH-S 489
F LG C L +P++ + E + F+ L+++ GP F N ++
Sbjct: 370 FSLGSCDLPESHLNELAARGLPTPVVLEFDSEFEMLLAFMTLVKQYGPEFVTGYNIINFD 429
Query: 490 QLFALSKLVELLDNPLHNYFKQN 512
F L+KL ++ PL Y + N
Sbjct: 430 WPFLLAKLTDIYKVPLDGYGRMN 452
>pdb|4HLQ|A Chain A, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|C Chain C, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|E Chain E, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|G Chain G, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|I Chain I, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
Length = 305
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 62/279 (22%), Positives = 115/279 (41%), Gaps = 50/279 (17%)
Query: 326 DSNALRKR-IFYGGV-DHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYE---NIKR 380
D ALR+ I GG+ ++RR+VW LL A D + LR + K + +++R
Sbjct: 46 DVAALRRMAISEGGLLTDEIRRKVWPKLLNVNANDPPPISGKNLRQMSKDYQQVLLDVRR 105
Query: 381 QWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNF 440
+ P +R+GL ++ + + NP +H
Sbjct: 106 SLRRFPPGMPE-----EQREGLQEELIDIILLILE-----RNPQLH-------------- 141
Query: 441 DLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRD--QNGMHSQLFALSKLV 498
Y QG D++ L V+ + + +L+E+L + RD M + L+ L+
Sbjct: 142 ---YYQGYHDIVVTFLLVVGERLAT-----SLVEKLSTHHLRDFMDPTMDNTKHILNYLM 193
Query: 499 ELLD--NPLHNYFKQNDCLNYFFCFRWVLIQFKREF-EYEKTMRLWEVLWTHYLSEH-LH 554
++D NP + F Q+ + F W++ F ++ +RL++ +L+ H L
Sbjct: 194 PIIDQVNPELHDFMQSAEVGTIFALSWLITWFGHVLSDFRHVVRLYDF----FLACHPLM 249
Query: 555 LYVCVAILKRYRNKIMGEQMDFDTLLKFINELSGRIDLD 593
A++ YR + E +D D + ++ L +I D
Sbjct: 250 PIYFAAVIVLYREQ---EVLDCDCDMASVHHLLSQIPQD 285
>pdb|4HL4|A Chain A, Crystal Structure Of The Human Tbc1d20 Rabgap Domain
Length = 292
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 62/279 (22%), Positives = 115/279 (41%), Gaps = 50/279 (17%)
Query: 326 DSNALRKR-IFYGGV-DHKLRREVWAFLLGYYAYDSTYAEREYLRCIKKSEYE---NIKR 380
D ALR+ I GG+ ++RR+VW LL A D + LR + K + +++R
Sbjct: 33 DVAALRRMAISEGGLLTDEIRRKVWPKLLNVNANDPPPISGKNLRQMSKDYQQVLLDVRR 92
Query: 381 QWQSISPEQARRFTKFRERKGLIDKDVVRTDRSVTFFDGDDNPNVHLLRDILLTYSFYNF 440
+ P +R+GL ++ + + NP +H
Sbjct: 93 SLRRFPPGMPE-----EQREGLQEELIDIILLILE-----RNPQLH-------------- 128
Query: 441 DLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRD--QNGMHSQLFALSKLV 498
Y QG D++ L V+ + + +L+E+L + RD M + L+ L+
Sbjct: 129 ---YYQGYHDIVVTFLLVVGERLAT-----SLVEKLSTHHLRDFMDPTMDNTKHILNYLM 180
Query: 499 ELLD--NPLHNYFKQNDCLNYFFCFRWVLIQFKREF-EYEKTMRLWEVLWTHYLSEH-LH 554
++D NP + F Q+ + F W++ F ++ +RL++ +L+ H L
Sbjct: 181 PIIDQVNPELHDFMQSAEVGTIFALSWLITWFGHVLSDFRHVVRLYDF----FLACHPLM 236
Query: 555 LYVCVAILKRYRNKIMGEQMDFDTLLKFINELSGRIDLD 593
A++ YR + E +D D + ++ L +I D
Sbjct: 237 PIYFAAVIVLYREQ---EVLDCDCDMASVHHLLSQIPQD 272
>pdb|1QQC|A Chain A, Crystal Structure Of An Archaebacterial Dna Polymerase
D.Tok
Length = 773
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 430 DILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRDQNG-MH 488
D+L+TY+ NFD Y + S++L + D S+ ++R+G F + G +H
Sbjct: 204 DVLITYNGDNFDFAYLKKRSEMLGVKFILGRDGSEP------KIQRMGDRFAVEVKGRIH 257
Query: 489 SQLFAL 494
L+ +
Sbjct: 258 FDLYPV 263
>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 = 3.0, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 430 DILLTYSFYNFDLGYCQGMSDLLSPILFVMEDESQSFWCFVALMERLGPNFNRDQNG-MH 488
D+L+TY+ NFD Y + S++L + D S+ ++R+G F + G +H
Sbjct: 204 DVLITYNGDNFDFAYLKKRSEMLGVKFILGRDGSEP------KIQRMGDRFAVEVKGRIH 257
Query: 489 SQLFAL 494
L+ +
Sbjct: 258 FDLYPV 263
>pdb|3EFM|A Chain A, Structure Of The Alcaligin Outer Membrane Recepteur Faua
From Bordetella Pertussis
Length = 707
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 8/58 (13%)
Query: 262 TTSQLFRENHSNGFGA-FEKKFDSQSALDFDHKASYDTETIVNEIPVAPDPVEWTTFL 318
TTS ++ NHSNGFG+ F + S DF+ ++ N P A E TT+
Sbjct: 231 TTSVEYQHNHSNGFGSGFPLFYSDGSRTDFN-------RSVANNAPWARQDTEATTYF 281
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
0.322 0.137 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,712,344
Number of Sequences: 62578
Number of extensions: 771728
Number of successful extensions: 1716
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1696
Number of HSP's gapped (non-prelim): 18
length of query: 638
length of database: 14,973,337
effective HSP length: 105
effective length of query: 533
effective length of database: 8,402,647
effective search space: 4478610851
effective search space used: 4478610851
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)