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= 004971
(721 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W8B|A Chain A, Crystal Structure Of Processed Tolb In Complex With Pal
Length = 409
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 72/129 (55%), Gaps = 9/129 (6%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDT 561
AVR++ + ++N P+ SPDG + F ++TG NLY+MD G+ + ++T+G ++T
Sbjct: 214 AVRQVASFPRHNGAPAFSPDGSKLAFALSKTGSLNLYVMDLASGQ---IRQVTDGRSNNT 270
Query: 562 MCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKS 621
W PD + +AF SD+ +G ++Y ++ NG +++ GS + S DGK
Sbjct: 271 EPTWFPDSQNLAFTSDQ----AGRPQVYKVNINGGAPQRITWEGSQNQDAD--VSSDGKF 324
Query: 622 IVFTSDYGG 630
+V S GG
Sbjct: 325 MVMVSSNGG 333
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 61/255 (23%), Positives = 111/255 (43%), Gaps = 39/255 (15%)
Query: 373 LNPFISPDSSRVGYHKCRGGSTREDGNNQLLLENIKS-PLPDISLFRFDGSFPSFSPKGD 431
++P SPD S++ Y T E G + L+++ + + + ++ F P+FSP G
Sbjct: 182 MSPAWSPDGSKLAY------VTFESGRSALVIQTLANGAVRQVASFPRHNGAPAFSPDGS 235
Query: 432 RIAFVEFP----GVYVVNSDGSNRRQVYFKNAFST--VWDPVREAVVYTS---GGPEFAX 482
++AF +YV++ RQV + +T W P + + +TS G P+
Sbjct: 236 KLAFALSKTGSLNLYVMDLASGQIRQVTDGRSNNTEPTWFPDSQNLAFTSDQAGRPQV-- 293
Query: 483 XXXXXXXXXXXXXXXXXXXAVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDA 542
A +R+T G N VS DGK++V S+ G +++ D
Sbjct: 294 -----------YKVNINGGAPQRITWEGSQNQDADVSSDGKFMVMVSSNGGQQHIAKQDL 342
Query: 543 EGGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLI 602
G G+ L+ + D + +P+G + ++S + G GS + L+ +G +L
Sbjct: 343 ATG---GVQVLSS-TFLDETPSLAPNGTMVLYSSSQ---GMGSV-LNLVSTDGRFKARL- 393
Query: 603 QSGSAGRANHPYFSP 617
+ G+ P +SP
Sbjct: 394 -PATDGQVKFPAWSP 407
>pdb|2W8B|B Chain B, Crystal Structure Of Processed Tolb In Complex With Pal
pdb|2W8B|D Chain D, Crystal Structure Of Processed Tolb In Complex With Pal
pdb|2W8B|F Chain F, Crystal Structure Of Processed Tolb In Complex With Pal
Length = 409
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 72/129 (55%), Gaps = 9/129 (6%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDT 561
AVR++ + ++N P+ SPDG + F ++TG NLY+MD G+ + ++T+G ++T
Sbjct: 214 AVRQVASFPRHNGAPAFSPDGSKLAFALSKTGSLNLYVMDLASGQ---IRQVTDGRSNNT 270
Query: 562 MCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKS 621
W PD + +AF SD+ +G ++Y ++ NG +++ GS + S DGK
Sbjct: 271 EPTWFPDSQNLAFTSDQ----AGRPQVYKVNINGGAPQRITWEGSQNQDAD--VSSDGKF 324
Query: 622 IVFTSDYGG 630
+V S GG
Sbjct: 325 MVMVSSNGG 333
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 61/255 (23%), Positives = 111/255 (43%), Gaps = 39/255 (15%)
Query: 373 LNPFISPDSSRVGYHKCRGGSTREDGNNQLLLENIKS-PLPDISLFRFDGSFPSFSPKGD 431
++P SPD S++ Y T E G + L+++ + + + ++ F P+FSP G
Sbjct: 182 MSPAWSPDGSKLAY------VTFESGRSALVIQTLANGAVRQVASFPRHNGAPAFSPDGS 235
Query: 432 RIAFVEFP----GVYVVNSDGSNRRQVYFKNAFST--VWDPVREAVVYTS---GGPEFAX 482
++AF +YV++ RQV + +T W P + + +TS G P+
Sbjct: 236 KLAFALSKTGSLNLYVMDLASGQIRQVTDGRSNNTEPTWFPDSQNLAFTSDQAGRPQV-- 293
Query: 483 XXXXXXXXXXXXXXXXXXXAVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDA 542
A +R+T G N VS DGK++V S+ G +++ D
Sbjct: 294 -----------YKVNINGGAPQRITWEGSQNQDADVSSDGKFMVMVSSNGGQQHIAKQDL 342
Query: 543 EGGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLI 602
G G+ L+ + D + +P+G + ++S + G GS + L+ +G +L
Sbjct: 343 ATG---GVQVLSS-TFLDETPSLAPNGTMVIYSSSQ---GMGSV-LNLVSTDGRFKARL- 393
Query: 603 QSGSAGRANHPYFSP 617
+ G+ P +SP
Sbjct: 394 -PATDGQVKFPAWSP 407
>pdb|1C5K|A Chain A, The Structure Of Tolb, An Essential Component Of The Tol-
Dependent Translocation System And Its Interactions With
The Translocation Domain Of Colicin E9
pdb|2IVZ|A Chain A, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
pdb|2IVZ|B Chain B, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
pdb|2IVZ|C Chain C, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
pdb|2IVZ|D Chain D, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
Length = 439
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 72/129 (55%), Gaps = 9/129 (6%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDT 561
AVR++ + ++N P+ SPDG + F ++TG NLY+MD G+ + ++T+G ++T
Sbjct: 236 AVRQVASFPRHNGAPAFSPDGSKLAFALSKTGSLNLYVMDLASGQ---IRQVTDGRSNNT 292
Query: 562 MCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKS 621
W PD + +AF SD+ +G ++Y ++ NG +++ GS + S DGK
Sbjct: 293 EPTWFPDSQNLAFTSDQ----AGRPQVYKVNINGGAPQRITWEGSQNQDAD--VSSDGKF 346
Query: 622 IVFTSDYGG 630
+V S GG
Sbjct: 347 MVMVSSNGG 355
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 61/255 (23%), Positives = 111/255 (43%), Gaps = 39/255 (15%)
Query: 373 LNPFISPDSSRVGYHKCRGGSTREDGNNQLLLENIKS-PLPDISLFRFDGSFPSFSPKGD 431
++P SPD S++ Y T E G + L+++ + + + ++ F P+FSP G
Sbjct: 204 MSPAWSPDGSKLAY------VTFESGRSALVIQTLANGAVRQVASFPRHNGAPAFSPDGS 257
Query: 432 RIAFVEFP----GVYVVNSDGSNRRQVYFKNAFST--VWDPVREAVVYTS---GGPEFAX 482
++AF +YV++ RQV + +T W P + + +TS G P+
Sbjct: 258 KLAFALSKTGSLNLYVMDLASGQIRQVTDGRSNNTEPTWFPDSQNLAFTSDQAGRPQV-- 315
Query: 483 XXXXXXXXXXXXXXXXXXXAVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDA 542
A +R+T G N VS DGK++V S+ G +++ D
Sbjct: 316 -----------YKVNINGGAPQRITWEGSQNQDADVSSDGKFMVMVSSNGGQQHIAKQDL 364
Query: 543 EGGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLI 602
G G+ L+ + D + +P+G + ++S + G GS + L+ +G +L
Sbjct: 365 ATG---GVQVLSS-TFLDETPSLAPNGTMVIYSSSQ---GMGSV-LNLVSTDGRFKARL- 415
Query: 603 QSGSAGRANHPYFSP 617
+ G+ P +SP
Sbjct: 416 -PATDGQVKFPAWSP 429
>pdb|3IAX|A Chain A, The Crystal Structure Of The Tolb Box Of Colicin A In
Complex With Tolb Reveals Important Differences In The
Recruitment Of The Common Tolb Translocation Portal Used
By Group A Colicins
Length = 438
Score = 67.8 bits (164), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 72/129 (55%), Gaps = 9/129 (6%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDT 561
AVR++ + ++N P+ SPDG + F ++TG NLY+MD G+ + ++T+G ++T
Sbjct: 235 AVRQVASFPRHNGAPAFSPDGSKLAFALSKTGSLNLYVMDLASGQ---IRQVTDGRSNNT 291
Query: 562 MCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKS 621
W PD + +AF SD+ +G ++Y ++ NG +++ GS + S DGK
Sbjct: 292 EPTWFPDSQNLAFTSDQ----AGRPQVYKVNINGGAPQRITWEGSQNQDAD--VSSDGKF 345
Query: 622 IVFTSDYGG 630
+V S GG
Sbjct: 346 MVMVSSNGG 354
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 61/255 (23%), Positives = 111/255 (43%), Gaps = 39/255 (15%)
Query: 373 LNPFISPDSSRVGYHKCRGGSTREDGNNQLLLENIKS-PLPDISLFRFDGSFPSFSPKGD 431
++P SPD S++ Y T E G + L+++ + + + ++ F P+FSP G
Sbjct: 203 MSPAWSPDGSKLAY------VTFESGRSALVIQTLANGAVRQVASFPRHNGAPAFSPDGS 256
Query: 432 RIAFVEFP----GVYVVNSDGSNRRQVYFKNAFST--VWDPVREAVVYTS---GGPEFAX 482
++AF +YV++ RQV + +T W P + + +TS G P+
Sbjct: 257 KLAFALSKTGSLNLYVMDLASGQIRQVTDGRSNNTEPTWFPDSQNLAFTSDQAGRPQV-- 314
Query: 483 XXXXXXXXXXXXXXXXXXXAVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDA 542
A +R+T G N VS DGK++V S+ G +++ D
Sbjct: 315 -----------YKVNINGGAPQRITWEGSQNQDADVSSDGKFMVMVSSNGGQQHIAKQDL 363
Query: 543 EGGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLI 602
G G+ L+ + D + +P+G + ++S + G GS + L+ +G +L
Sbjct: 364 ATG---GVQVLSS-TFLDETPSLAPNGTMVIYSSSQ---GMGSV-LNLVSTDGRFKARL- 414
Query: 603 QSGSAGRANHPYFSP 617
+ G+ P +SP
Sbjct: 415 -PATDGQVKFPAWSP 428
>pdb|2HQS|A Chain A, Crystal Structure Of TolbPAL COMPLEX
pdb|2HQS|B Chain B, Crystal Structure Of TolbPAL COMPLEX
pdb|2HQS|D Chain D, Crystal Structure Of TolbPAL COMPLEX
pdb|2HQS|F Chain F, Crystal Structure Of TolbPAL COMPLEX
Length = 415
Score = 67.8 bits (164), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 72/129 (55%), Gaps = 9/129 (6%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDT 561
AVR++ + ++N P+ SPDG + F ++TG NLY+MD G+ + ++T+G ++T
Sbjct: 214 AVRQVASFPRHNGAPAFSPDGSKLAFALSKTGSLNLYVMDLASGQ---IRQVTDGRSNNT 270
Query: 562 MCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKS 621
W PD + +AF SD+ +G ++Y ++ NG +++ GS + S DGK
Sbjct: 271 EPTWFPDSQNLAFTSDQ----AGRPQVYKVNINGGAPQRITWEGSQNQDAD--VSSDGKF 324
Query: 622 IVFTSDYGG 630
+V S GG
Sbjct: 325 MVMVSSNGG 333
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 61/255 (23%), Positives = 111/255 (43%), Gaps = 39/255 (15%)
Query: 373 LNPFISPDSSRVGYHKCRGGSTREDGNNQLLLENIKS-PLPDISLFRFDGSFPSFSPKGD 431
++P SPD S++ Y T E G + L+++ + + + ++ F P+FSP G
Sbjct: 182 MSPAWSPDGSKLAY------VTFESGRSALVIQTLANGAVRQVASFPRHNGAPAFSPDGS 235
Query: 432 RIAFVEFP----GVYVVNSDGSNRRQVYFKNAFST--VWDPVREAVVYTS---GGPEFAX 482
++AF +YV++ RQV + +T W P + + +TS G P+
Sbjct: 236 KLAFALSKTGSLNLYVMDLASGQIRQVTDGRSNNTEPTWFPDSQNLAFTSDQAGRPQV-- 293
Query: 483 XXXXXXXXXXXXXXXXXXXAVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDA 542
A +R+T G N VS DGK++V S+ G +++ D
Sbjct: 294 -----------YKVNINGGAPQRITWEGSQNQDADVSSDGKFMVMVSSNGGQQHIAKQDL 342
Query: 543 EGGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLI 602
G G+ L+ + D + +P+G + ++S + G GS + L+ +G +L
Sbjct: 343 ATG---GVQVLSS-TFLDETPSLAPNGTMVIYSSSQ---GMGSV-LNLVSTDGRFKARL- 393
Query: 603 QSGSAGRANHPYFSP 617
+ G+ P +SP
Sbjct: 394 -PATDGQVKFPAWSP 407
>pdb|1CRZ|A Chain A, Crystal Structure Of The E. Coli Tolb Protein
Length = 403
Score = 63.2 bits (152), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 41/129 (31%), Positives = 70/129 (54%), Gaps = 9/129 (6%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDT 561
AVR++ + ++N P+ SPDG + F ++TG NLY+ D G+ + ++T+G ++T
Sbjct: 208 AVRQVASFPRHNGAPAFSPDGSKLAFALSKTGSLNLYVXDLASGQ---IRQVTDGRSNNT 264
Query: 562 MCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKS 621
W PD + +AF SD+ +G ++Y ++ NG +++ GS + S DGK
Sbjct: 265 EPTWFPDSQNLAFTSDQ----AGRPQVYKVNINGGAPQRITWEGSQNQDAD--VSSDGKF 318
Query: 622 IVFTSDYGG 630
V S GG
Sbjct: 319 XVXVSSNGG 327
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 61/254 (24%), Positives = 108/254 (42%), Gaps = 39/254 (15%)
Query: 374 NPFISPDSSRVGYHKCRGGSTREDGNNQLLLENIKS-PLPDISLFRFDGSFPSFSPKGDR 432
+P SPD S++ Y T E G + L+++ + + + ++ F P+FSP G +
Sbjct: 177 SPAWSPDGSKLAY------VTFESGRSALVIQTLANGAVRQVASFPRHNGAPAFSPDGSK 230
Query: 433 IAFVEFP----GVYVVNSDGSNRRQVYFKNAFST--VWDPVREAVVYTS---GGPEFAXX 483
+AF +YV + RQV + +T W P + + +TS G P+
Sbjct: 231 LAFALSKTGSLNLYVXDLASGQIRQVTDGRSNNTEPTWFPDSQNLAFTSDQAGRPQV--- 287
Query: 484 XXXXXXXXXXXXXXXXXXAVRRLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAE 543
A +R+T G N VS DGK+ V S+ G +++ D
Sbjct: 288 ----------YKVNINGGAPQRITWEGSQNQDADVSSDGKFXVXVSSNGGQQHIAKQDLA 337
Query: 544 GGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQ 603
G G+ L+ + D + +P+G + ++S + G GS + L+ +G +L
Sbjct: 338 TG---GVQVLSS-TFLDETPSLAPNGTXVIYSSSQ---GXGSV-LNLVSTDGRFKARL-- 387
Query: 604 SGSAGRANHPYFSP 617
+ G+ P +SP
Sbjct: 388 PATDGQVKFPAWSP 401
>pdb|2OJH|A Chain A, The Structure Of Putative Tolb From Agrobacterium
Tumefaciens
Length = 297
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/126 (30%), Positives = 57/126 (45%), Gaps = 8/126 (6%)
Query: 505 RLTTNGKNNAFPSVSPDGKWIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDTMCN 564
RLT N P SPDG+WI F S+RTG ++ + +G + R+T+ + D +
Sbjct: 167 RLTHGEGRNDGPDYSPDGRWIYFNSSRTGQXQIWRVRVDGSS---VERITDSAYGDWFPH 223
Query: 565 WSPDGEWIAFASDR----DNPGSGSFEMYLIHPNGTGLRKLIQS-GSAGRANHPYFSPDG 619
SP G+ + F S D+P + L +G + L G G N P +SPDG
Sbjct: 224 PSPSGDKVVFVSYDADVFDHPRDLDVRVQLXDXDGGNVETLFDLFGGQGTXNSPNWSPDG 283
Query: 620 KSIVFT 625
+
Sbjct: 284 DEFAYV 289
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 70/155 (45%), Gaps = 25/155 (16%)
Query: 518 VSPDGK-WIVFRSTRTGYKNLYIMDAEGGEGYGLHRLTEGPWSDTMCNWSPDGEWIAFAS 576
+SPDG + + G +Y++ + GG RL WSPDG+ +
Sbjct: 92 ISPDGALYAISDKVEFGKSAIYLLPSTGG----TPRLXTKNLPSYWHGWSPDGKSFTYCG 147
Query: 577 DRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFTSDYGGISAEPI 636
RD F++Y + +G+ + G GR + P +SPDG+ I F S G
Sbjct: 148 IRDQ----VFDIYSXDID-SGVETRLTHGE-GRNDGPDYSPDGRWIYFNSSRTGQX---- 197
Query: 637 STPHQYQPYGEIFKIKLDGSDLKRLTQNSFEDGTP 671
+I+++++DGS ++R+T +++ D P
Sbjct: 198 ----------QIWRVRVDGSSVERITDSAYGDWFP 222
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 502 AVRRLTTNGKNNAFPSVSPDGKWIVFRS--------TRTGYKNLYIMDAEGGEGYGLHRL 553
+V R+T + + FP SP G +VF S R + + D +GG L L
Sbjct: 208 SVERITDSAYGDWFPHPSPSGDKVVFVSYDADVFDHPRDLDVRVQLXDXDGGNVETLFDL 267
Query: 554 TEGPWSDTMCNWSPDGEWIAFA 575
G + NWSPDG+ A+
Sbjct: 268 FGGQGTXNSPNWSPDGDEFAYV 289
>pdb|3PE7|A Chain A, Oligogalacturonate Lyase In Complex With Manganese
Length = 388
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 23/39 (58%)
Query: 588 MYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFTS 626
M+LI+ +GT +RK+ H ++ PDG ++V+ S
Sbjct: 218 MWLINEDGTNMRKVKTHAEGESCTHEFWVPDGSALVYVS 256
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 612 HPYFSPDGKSIVFTSDYGGISAEPIST 638
HP F+PD K I+FTSD G A ++T
Sbjct: 355 HPSFTPDDKQILFTSDVHGKPALYLAT 381
>pdb|2YMU|A Chain A, Structure Of A Highly Repetitive Propeller Structure
pdb|2YMU|B Chain B, Structure Of A Highly Repetitive Propeller Structure
Length = 577
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
SPDG+ IA ASD + L + NG L+ L +G + N F PDG++I
Sbjct: 230 SPDGQTIASASDDKT-------VKLWNRNGQLLQTL--TGHSSSVNGVAFRPDGQTIASA 280
Query: 626 SD 627
SD
Sbjct: 281 SD 282
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
SPDG+ IA ASD + L + NG L+ L S+ R FSPDG++I
Sbjct: 66 SPDGQTIASASDDKT-------VKLWNRNGQLLQTLTGHSSSVRG--VAFSPDGQTIASA 116
Query: 626 SD 627
SD
Sbjct: 117 SD 118
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
SPDG+ IA ASD + L + NG L+ L S+ R FSPDG++I
Sbjct: 189 SPDGQTIASASDDKT-------VKLWNRNGQLLQTLTGHSSSVRG--VAFSPDGQTIASA 239
Query: 626 SD 627
SD
Sbjct: 240 SD 241
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
SPDG+ IA ASD + L + NG L+ L S+ R FSPDG++I
Sbjct: 353 SPDGQTIASASDDKT-------VKLWNRNGQLLQTLTGHSSSVRG--VAFSPDGQTIASA 403
Query: 626 SD 627
SD
Sbjct: 404 SD 405
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
SPDG+ IA ASD + L + NG L+ L S+ R FSPDG++I
Sbjct: 476 SPDGQTIASASDDKT-------VKLWNRNGQLLQTLTGHSSSVRG--VAFSPDGQTIASA 526
Query: 626 SD 627
SD
Sbjct: 527 SD 528
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
SPDG+ IA ASD + L + NG L+ L +G + FSPDG++I
Sbjct: 312 SPDGQTIASASDDKT-------VKLWNRNGQHLQTL--TGHSSSVWGVAFSPDGQTIASA 362
Query: 626 SD 627
SD
Sbjct: 363 SD 364
>pdb|3C5M|A Chain A, Crystal Structure Of Oligogalacturonate Lyase (Vpa0088)
From Vibrio Parahaemolyticus. Northeast Structural
Genomics Consortium Target Vpr199
pdb|3C5M|B Chain B, Crystal Structure Of Oligogalacturonate Lyase (Vpa0088)
From Vibrio Parahaemolyticus. Northeast Structural
Genomics Consortium Target Vpr199
pdb|3C5M|C Chain C, Crystal Structure Of Oligogalacturonate Lyase (Vpa0088)
From Vibrio Parahaemolyticus. Northeast Structural
Genomics Consortium Target Vpr199
Length = 396
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 23/42 (54%)
Query: 589 YLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFTSDYGG 630
+L++ +G+ +RK+ + H ++ PDG + + S + G
Sbjct: 219 WLVNEDGSNVRKIKEHAEGESCTHEFWIPDGSAXAYVSYFKG 260
Score = 29.6 bits (65), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 612 HPYFSPDGKSIVFTSDYGGISAEPIS-TPHQYQ 643
HP F+P+ ++FTSD+ G+ A I+ P Y+
Sbjct: 355 HPSFTPNDDGVLFTSDFEGVPAIYIADVPESYK 387
>pdb|1BQB|A Chain A, Aureolysin, Staphylococcus Aureus Metalloproteinase
Length = 301
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 28/114 (24%), Positives = 47/114 (41%), Gaps = 9/114 (7%)
Query: 114 ERNGTSNIYYDAVYYDTRRNTRSRTALEQHGAEVSTRVQVPLLDLNEVNG-GVISMKDKP 172
+R G YY YD +NT R + + HG+ P++ L VN G ++
Sbjct: 64 QRAGVDANYYAKQTYDYYKNTFGRESYDNHGS--------PIVSLTHVNHYGGQDNRNNA 115
Query: 173 ILSGEYLIYVSTHENPGTPRTSWAAVYSTELKTGLTRRLTPYGVADFSPAVSPS 226
G+ +IY T + V + E+ G+T++ D S A++ S
Sbjct: 116 AWIGDKMIYGDGDGRTFTNLSGANDVVAHEITHGVTQQTANLEYKDQSGALNES 169
>pdb|3FGB|A Chain A, Crystal Structure Of The Q89zh8_bactn Protein From
Bacteroides Thetaiotaomicron. Northeast Structural
Genomics Consortium Target Btr289b.
pdb|3FGB|B Chain B, Crystal Structure Of The Q89zh8_bactn Protein From
Bacteroides Thetaiotaomicron. Northeast Structural
Genomics Consortium Target Btr289b
Length = 361
Score = 29.3 bits (64), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 5/97 (5%)
Query: 566 SPDGEWIAFASDRDNPGSGSFEMYLIHPNGTGLRKLIQSGSAGRANHPYFSPDGKSIVFT 625
S DG++I S+ N + + GT +L+ + G + Y +G ++V T
Sbjct: 50 SADGKFIYAVSEFSNEQAAANAFAFNKEEGT--FRLLNTQKTGGEDPCYIITNGSNVV-T 106
Query: 626 SDYGG--ISAEPISTPHQYQPYGEIFKIKLDGSDLKR 660
++Y G IS PI P E+ K K G+D +R
Sbjct: 107 ANYSGGSISVFPIDKDGSLLPASEVVKFKGSGADKER 143
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 0.135 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,330,088
Number of Sequences: 62578
Number of extensions: 1046747
Number of successful extensions: 2366
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2238
Number of HSP's gapped (non-prelim): 73
length of query: 721
length of database: 14,973,337
effective HSP length: 106
effective length of query: 615
effective length of database: 8,340,069
effective search space: 5129142435
effective search space used: 5129142435
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: 55 (25.8 bits)