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= 003325
(829 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 79.3 bits (194), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 85/300 (28%), Positives = 141/300 (47%), Gaps = 36/300 (12%)
Query: 210 ICGIGGSGKTTLALEVCRDHQV-TSYFNNRILFLTVSQSPNVEQLRAKVWGFVSGCDSME 268
I G+ G GK+ LA E RDH + F + +++V + + L K+ + D E
Sbjct: 152 IHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRLDQDE 210
Query: 269 PNYVIPHWNLQ--------IQSKLGSRCLVVLDDVWSLAVLEQLIFRVPGCKTLVVSRFK 320
N++ + + R L++LDDVW VL+ + C+ L+ +R K
Sbjct: 211 SFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQ---CQILLTTRDK 267
Query: 321 FST--VLNDTY----EVELLRED--ESLSLFCYSAFGQKTIPPSANENLVKQIVKKCKGL 372
T V+ Y E L +E E LSLF + +P A+ I+K+CKG
Sbjct: 268 SVTDSVMGPKYVVPVESSLGKEKGLEILSLFV--NMKKADLPEQAHS-----IIKECKGS 320
Query: 373 PLALKVIGASLREQP---EMYWTSAKKRLSKGEPICESHENNLLDR-MAISIQYLPKKVK 428
PL + +IGA LR+ P E Y + + K S++ LD M+IS++ L + +K
Sbjct: 321 PLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 380
Query: 429 ECFLDLGSFPEDKKIPLEVLINMWVEIHDLDEEEAFAILVELSDRNLLKIVKDARAGDMY 488
+ + DL +D K+P +VL +W D++ EE IL E +++LL ++ ++ Y
Sbjct: 381 DYYTDLSILQKDVKVPTKVLCILW----DMETEEVEDILQEFVNKSLLFCDRNGKSFRYY 436
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 85/300 (28%), Positives = 141/300 (47%), Gaps = 36/300 (12%)
Query: 210 ICGIGGSGKTTLALEVCRDHQV-TSYFNNRILFLTVSQSPNVEQLRAKVWGFVSGCDSME 268
I G+ G GK+ LA E RDH + F + +++V + + L K+ + D E
Sbjct: 158 IHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRLDQDE 216
Query: 269 PNYVIPHWNLQ--------IQSKLGSRCLVVLDDVWSLAVLEQLIFRVPGCKTLVVSRFK 320
N++ + + R L++LDDVW VL+ + C+ L+ +R K
Sbjct: 217 SFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQ---CQILLTTRDK 273
Query: 321 FST--VLNDTY----EVELLRED--ESLSLFCYSAFGQKTIPPSANENLVKQIVKKCKGL 372
T V+ Y E L +E E LSLF + +P A+ I+K+CKG
Sbjct: 274 SVTDSVMGPKYVVPVESSLGKEKGLEILSLFV--NMKKADLPEQAHS-----IIKECKGS 326
Query: 373 PLALKVIGASLREQP---EMYWTSAKKRLSKGEPICESHENNLLDR-MAISIQYLPKKVK 428
PL + +IGA LR+ P E Y + + K S++ LD M+IS++ L + +K
Sbjct: 327 PLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 386
Query: 429 ECFLDLGSFPEDKKIPLEVLINMWVEIHDLDEEEAFAILVELSDRNLLKIVKDARAGDMY 488
+ + DL +D K+P +VL +W D++ EE IL E +++LL ++ ++ Y
Sbjct: 387 DYYTDLSILQKDVKVPTKVLCILW----DMETEEVEDILQEFVNKSLLFCDRNGKSFRYY 442
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 73.9 bits (180), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 84/300 (28%), Positives = 141/300 (47%), Gaps = 36/300 (12%)
Query: 210 ICGIGGSGKTTLALEVCRDHQV-TSYFNNRILFLTVSQSPNVEQLRAKVWGFVSGCDSME 268
I G+ G GK+ LA E RDH + F+ + ++++ + + L K+ D E
Sbjct: 152 IYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ-DKSGLLMKLQNLCMRLDQEE 210
Query: 269 PNYVIPHWNLQ--------IQSKLGSRCLVVLDDVWSLAVLEQLIFRVPGCKTLVVSRFK 320
N++ + + R L++LDDVW VL+ + C+ L+ +R K
Sbjct: 211 SFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQ---CQILLTTRDK 267
Query: 321 FST--VLNDTY----EVELLRED--ESLSLFCYSAFGQKTIPPSANENLVKQIVKKCKGL 372
T V+ + E L RE E LSLF ++ +P A+ I+K+CKG
Sbjct: 268 SVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHS-----IIKECKGS 320
Query: 373 PLALKVIGASLREQPE---MYWTSAKKRLSKGEPICESHENNLLDR-MAISIQYLPKKVK 428
PL + +IGA LR+ P Y + + K S++ LD M+IS++ L + +K
Sbjct: 321 PLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 380
Query: 429 ECFLDLGSFPEDKKIPLEVLINMWVEIHDLDEEEAFAILVELSDRNLLKIVKDARAGDMY 488
+ + DL +D K+P +VL +W DL+ EE IL E +++LL ++ ++ Y
Sbjct: 381 DYYTDLSILQKDVKVPTKVLCVLW----DLETEEVEDILQEFVNKSLLFCNRNGKSFCYY 436
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 83/300 (27%), Positives = 140/300 (46%), Gaps = 36/300 (12%)
Query: 210 ICGIGGSGKTTLALEVCRDHQV-TSYFNNRILFLTVSQSPNVEQLRAKVWGFVSGCDSME 268
I G+ G GK+ LA E RDH + F+ + ++++ + + L K+ D E
Sbjct: 159 IYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ-DKSGLLMKLQNLCMRLDQEE 217
Query: 269 PNYVIPHWNLQ--------IQSKLGSRCLVVLDDVWSLAVLEQLIFRVPGCKTLVVSRFK 320
N++ + + R L++LDDVW VL+ + C+ L+ + K
Sbjct: 218 SFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQ---CQILLTTSDK 274
Query: 321 FST--VLNDTY----EVELLRED--ESLSLFCYSAFGQKTIPPSANENLVKQIVKKCKGL 372
T V+ + E L RE E LSLF ++ +P A+ I+K+CKG
Sbjct: 275 SVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHS-----IIKECKGS 327
Query: 373 PLALKVIGASLREQPE---MYWTSAKKRLSKGEPICESHENNLLDR-MAISIQYLPKKVK 428
PL + +IGA LR+ P Y + + K S++ LD M+IS++ L + +K
Sbjct: 328 PLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 387
Query: 429 ECFLDLGSFPEDKKIPLEVLINMWVEIHDLDEEEAFAILVELSDRNLLKIVKDARAGDMY 488
+ + DL +D K+P +VL +W DL+ EE IL E +++LL ++ ++ Y
Sbjct: 388 DYYTDLSILQKDVKVPTKVLCVLW----DLETEEVEDILQEFVNKSLLFCNRNGKSFCYY 443
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 58.9 bits (141), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 61/210 (29%), Positives = 88/210 (41%), Gaps = 16/210 (7%)
Query: 539 DQPF---NAQIVSIHTGDMREMDWFRMEFPKAEVLILNFSSTEEYFLPPFIENMEKLRAL 595
DQ F + Q +I + E+ +F E L L + LP I ++ +LR L
Sbjct: 98 DQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRA--LPASIASLNRLREL 155
Query: 596 IV------INYSTSNAALGNFSVCSNLTNLRSLWLEKVSISQLPKSSIPLKKMQKISFVL 649
+ A+ L NL+SL LE I LP S L+ ++ +
Sbjct: 156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL---- 211
Query: 650 CKINNSLDQSVVDLPKTLPCLTELTFDHCDDLMKLPPSICGLQSLKNLSVTNCHSLQELP 709
KI NS ++ LP L EL C L PP G LK L + +C +L LP
Sbjct: 212 -KIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP 270
Query: 710 ADIGKMKSLQILRLYACPHLRTLPARICEL 739
DI ++ L+ L L C +L LP+ I +L
Sbjct: 271 LDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 57.8 bits (138), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 80/186 (43%), Gaps = 21/186 (11%)
Query: 616 LTNLRSLWLEKVSISQLPKSSIPLKKMQKISFVLCKINNSLDQSVVDLPKTLPCLTELTF 675
L +L L + + LP S L +++++S C + +LP+ L T+ +
Sbjct: 126 FAGLETLTLARNPLRALPASIASLNRLRELSIRACP-------ELTELPEPL-ASTDASG 177
Query: 676 DHCD------------DLMKLPPSICGLQSLKNLSVTNCHSLQELPADIGKMKSLQILRL 723
+H + LP SI LQ+LK+L + N L L I + L+ L L
Sbjct: 178 EHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDL 236
Query: 724 YACPHLRTLPARICELVCLKYLNISQCVSLSCLPQGIGNLIRLEKIDMRECSQIWSLPKS 783
C LR P LK L + C +L LP I L +LEK+D+R C + LP
Sbjct: 237 RGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
Query: 784 VNSLKS 789
+ L +
Sbjct: 297 IAQLPA 302
Score = 55.1 bits (131), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 65/227 (28%), Positives = 98/227 (43%), Gaps = 47/227 (20%)
Query: 636 SIPLKKMQKISFVLCKINN-SLDQS-VVDLPKT---LPCLTELTFDHCDDLMKLPPSICG 690
S+PL + +F L + + ++D + + +LP T L LT + L LP SI
Sbjct: 90 SVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIAS 148
Query: 691 LQSLKNLSVTNCHSLQELPADIGKMKS---------LQILRLYACPHLRTLPARICELVC 741
L L+ LS+ C L ELP + + LQ LRL +R+LPA I L
Sbjct: 149 LNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQN 207
Query: 742 LKYLNISQCVSLSCLPQGIGNLIRLEKIDMR------------------------ECSQI 777
LK L I LS L I +L +LE++D+R +CS +
Sbjct: 208 LKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNL 266
Query: 778 WSLPKSVNSLKSLRQVICEEDVSWAWKDLEKTLPNLHVQVPAKCFSL 824
+LP ++ L L ++ V+ + LP+L Q+PA C L
Sbjct: 267 LTLPLDIHRLTQLEKLDLRGCVNLS------RLPSLIAQLPANCIIL 307
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 48/212 (22%), Positives = 90/212 (42%), Gaps = 19/212 (8%)
Query: 560 FRMEFPK------AEVLILNFSSTEEYFLPPFIENM-----EKLRALIVINYSTSNAALG 608
F E P+ A +L L+ SS F P + N+ L+ L + N +
Sbjct: 352 FSGELPESLTNLSASLLTLDLSSNN--FSGPILPNLCQNPKNTLQELYLQNNGFTGKIPP 409
Query: 609 NFSVCSNLTNLRSLWLEKVSISQLPKSSIPLKKMQKISFVLCKINNSLDQSVVDLPKTLP 668
S CS L +L L +S +P S L K++ + L + + Q ++ +
Sbjct: 410 TLSNCSELVSLH-LSFNYLS-GTIPSSLGSLSKLRDLKLWLNMLEGEIPQELM----YVK 463
Query: 669 CLTELTFDHCDDLMKLPPSICGLQSLKNLSVTNCHSLQELPADIGKMKSLQILRLYACPH 728
L L D D ++P + +L +S++N E+P IG++++L IL+L
Sbjct: 464 TLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSF 523
Query: 729 LRTLPARICELVCLKYLNISQCVSLSCLPQGI 760
+PA + + L +L+++ + +P +
Sbjct: 524 SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
>pdb|1VT4|I Chain I, Structure Of The Drosophila Apoptosome
pdb|1VT4|J Chain J, Structure Of The Drosophila Apoptosome
pdb|1VT4|K Chain K, Structure Of The Drosophila Apoptosome
pdb|1VT4|L Chain L, Structure Of The Drosophila Apoptosome
pdb|1VT4|M Chain M, Structure Of The Drosophila Apoptosome
pdb|1VT4|N Chain N, Structure Of The Drosophila Apoptosome
pdb|1VT4|O Chain O, Structure Of The Drosophila Apoptosome
pdb|1VT4|P Chain P, Structure Of The Drosophila Apoptosome
pdb|3IZ8|A Chain A, Structure Of The Drosophila Apoptosome
pdb|3IZ8|B Chain B, Structure Of The Drosophila Apoptosome
pdb|3IZ8|C Chain C, Structure Of The Drosophila Apoptosome
pdb|3IZ8|D Chain D, Structure Of The Drosophila Apoptosome
pdb|3IZ8|E Chain E, Structure Of The Drosophila Apoptosome
pdb|3IZ8|F Chain F, Structure Of The Drosophila Apoptosome
pdb|3IZ8|G Chain G, Structure Of The Drosophila Apoptosome
pdb|3IZ8|H Chain H, Structure Of The Drosophila Apoptosome
Length = 1221
Score = 33.5 bits (75), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 58/276 (21%), Positives = 101/276 (36%), Gaps = 61/276 (22%)
Query: 210 ICGIGGSGKTTLALEVCRDHQVTSYFNNRILFLTVSQSPNVEQLRAKVWGFVSGCDSMEP 269
I G+ GSGKT +AL+VC ++V + +I +L + + E + + + D
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID---- 210
Query: 270 NYVIPHWNLQ---------------------IQSKLGSRCLVVLDDVWSLAVLEQLIFRV 308
P+W + ++SK CL+VL +V +
Sbjct: 211 ----PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL-- 264
Query: 309 PGCKTLVVSRFK-FSTVLNDTYEVELLREDESLSLFCYSAFGQKTIPPSANENLVKQIVK 367
CK L+ +RFK + L+ + + S++L P L+K +
Sbjct: 265 -SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL----------TPDEVKSLLLKYLDC 313
Query: 368 KCKGLPLA--------LKVIGASLREQPEMYWTSAKKRLSKGEPICESHENNLLDRMAIS 419
+ + LP L +I S+R+ + K I ES N L
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL------- 366
Query: 420 IQYLPKKVKECFLDLGSFPEDKKIPLEVLINMWVEI 455
P + ++ F L FP IP +L +W ++
Sbjct: 367 ---EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 48/212 (22%), Positives = 90/212 (42%), Gaps = 19/212 (8%)
Query: 560 FRMEFPK------AEVLILNFSSTEEYFLPPFIENM-----EKLRALIVINYSTSNAALG 608
F E P+ A +L L+ SS F P + N+ L+ L + N +
Sbjct: 355 FSGELPESLTNLSASLLTLDLSSNN--FSGPILPNLCQNPKNTLQELYLQNNGFTGKIPP 412
Query: 609 NFSVCSNLTNLRSLWLEKVSISQLPKSSIPLKKMQKISFVLCKINNSLDQSVVDLPKTLP 668
S CS L +L L +S +P S L K++ + L + + Q ++ +
Sbjct: 413 TLSNCSELVSLH-LSFNYLS-GTIPSSLGSLSKLRDLKLWLNMLEGEIPQELM----YVK 466
Query: 669 CLTELTFDHCDDLMKLPPSICGLQSLKNLSVTNCHSLQELPADIGKMKSLQILRLYACPH 728
L L D D ++P + +L +S++N E+P IG++++L IL+L
Sbjct: 467 TLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSF 526
Query: 729 LRTLPARICELVCLKYLNISQCVSLSCLPQGI 760
+PA + + L +L+++ + +P +
Sbjct: 527 SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
>pdb|2WSF|K Chain K, Improved Model Of Plant Photosystem I
Length = 131
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 12/77 (15%)
Query: 127 RFETAERFDRMEGSARRLEQRLGAMRIGVGGGGWVDEAVKRVEMEEDTLAEGGLGNLMGI 186
RF A +R + +LE R ++ G G + DTLA G +G++MG+
Sbjct: 65 RFGLAPSANRKATAGLKLEARESGLQTGDPAGFTL----------ADTLACGAVGHIMGV 114
Query: 187 GMALG-KNK-VKEMVIG 201
G+ LG KN V + +IG
Sbjct: 115 GIVLGLKNTGVLDQIIG 131
>pdb|1Z05|A Chain A, Crystal Structure Of The Rok Family Transcriptional
Regulator, Homolog Of E.Coli Mlc Protein
Length = 429
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 48/96 (50%), Gaps = 10/96 (10%)
Query: 373 PLALKVIGASLREQPEMYWTSAKKRLSKGEPICESHENNLLDRMAISIQYLPKKVKECFL 432
P ++ I L + ++ T+ ++ +S+G P NNL Q+L ++ +L
Sbjct: 67 PASITKITRELIDAHLIHETTVQEAISRGRPAVGLQTNNL------GWQFLSMRLGRGYL 120
Query: 433 DLGSFPEDKKIPLEVLINMWVEIHDLDEEEAFAILV 468
+ ++ EVLI+ ++IH++D+++ A L+
Sbjct: 121 TIAL----HELGGEVLIDTKIDIHEIDQDDVLARLL 152
>pdb|3QGA|A Chain A, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|D Chain D, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|G Chain G, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|J Chain J, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|M Chain M, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|P Chain P, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGK|A Chain A, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|D Chain D, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|G Chain G, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|J Chain J, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|M Chain M, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|P Chain P, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
Length = 225
Score = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 92 KNLQLARKMEKLEKKVSRFLNGPMQAHVLADVHHMRFETAERFDRMEGSARRLEQRLG-A 150
K+++L E E KV+ GP HV + H A FDR + +RL+ G
Sbjct: 116 KDIELNAGKEITELKVTN--KGPKSLHVGSHFHFFEANRALEFDREKAYGKRLDIPSGNT 173
Query: 151 MRIGVG 156
+RIG G
Sbjct: 174 LRIGAG 179
>pdb|2WSC|K Chain K, Improved Model Of Plant Photosystem I
pdb|2WSE|K Chain K, Improved Model Of Plant Photosystem I
Length = 131
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 12/77 (15%)
Query: 127 RFETAERFDRMEGSARRLEQRLGAMRIGVGGGGWVDEAVKRVEMEEDTLAEGGLGNLMGI 186
RF A +R + +LE R ++ G G + DTLA G +G++MG+
Sbjct: 65 RFGLAPSANRKATAGLKLEARESGIQTGDPAGFTL----------ADTLACGAVGHIMGV 114
Query: 187 GMALG-KNK-VKEMVIG 201
G+ LG KN V + +IG
Sbjct: 115 GIVLGLKNTGVLDQIIG 131
>pdb|3TWI|D Chain D, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|E Chain E, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|F Chain F, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
Length = 179
Score = 31.6 bits (70), Expect = 2.1, Method: Composition-based stats.
Identities = 34/112 (30%), Positives = 52/112 (46%), Gaps = 12/112 (10%)
Query: 686 PSICGLQSLKNLSVTNCH--SLQELPADIGKMKSLQILRLYACPHLRTLPARICELVCLK 743
PS C + NC SL +PA I + Q+L LY + P L L
Sbjct: 14 PSQCSCSG----TTVNCQERSLASVPAGIPT--TTQVLHLYINQITKLEPGVFDSLTQLT 67
Query: 744 YLNISQCVSLSCLPQGI-GNLIRLEKIDMRECSQIWSLPKSV-NSLKSLRQV 793
YLN++ L+ LP G+ L +L + + +Q+ S+P V ++LKSL +
Sbjct: 68 YLNLA-VNQLTALPVGVFDKLTKLTHLAL-HINQLKSIPMGVFDNLKSLTHI 117
>pdb|3CSY|I Chain I, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|K Chain K, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|M Chain M, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|O Chain O, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
Length = 334
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 256 KVWGFVSGCDSMEPNYVIPHW-----NLQIQSKLGSRCLVVLDD 294
K WGF SG NY W NL+I+ GS CL D
Sbjct: 69 KRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPD 112
>pdb|2HZM|B Chain B, Structure Of The Mediator Head Subcomplex Med18/20
pdb|2HZM|D Chain D, Structure Of The Mediator Head Subcomplex Med18/20
pdb|2HZM|F Chain F, Structure Of The Mediator Head Subcomplex Med18/20
pdb|2HZM|H Chain H, Structure Of The Mediator Head Subcomplex Med18/20
Length = 317
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 513 ENINDRKRLLMPRR---DTELPKEW---ERNVDQPFNAQIVSIHTGDMREMDW--FRMEF 564
EN+N R +L+ P R E+P + E +D+P N +I+ T D +++ R
Sbjct: 49 ENVNSRNQLVEPNRIKLSKEVPFSYLIDETMMDKPLNFRILKSFTNDKIPLNYAMTRNIL 108
Query: 565 PKAEVLILNFSSTEE 579
+ NF+ST E
Sbjct: 109 HNTVPQVTNFNSTNE 123
>pdb|4GWP|E Chain E, Structure Of The Mediator Head Module From S. Cerevisiae
pdb|4GWQ|E Chain E, Structure Of The Mediator Head Module From S. Cerevisiae
In Complex With The Carboxy-Terminal Domain (Ctd) Of Rna
Polymerase Ii Rpb1 Subunit
Length = 307
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 513 ENINDRKRLLMPRR---DTELPKEW---ERNVDQPFNAQIVSIHTGDMREMDW--FRMEF 564
EN+N R +L+ P R E+P + E +D+P N +I+ T D +++ R
Sbjct: 50 ENVNSRNQLVEPNRIKLSKEVPFSYLIDETMMDKPLNFRILKSFTNDKIPLNYAMTRNIL 109
Query: 565 PKAEVLILNFSSTEE 579
+ NF+ST E
Sbjct: 110 HNTVPQVTNFNSTNE 124
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
0.320 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: 23,243,207
Number of Sequences: 62578
Number of extensions: 931123
Number of successful extensions: 2409
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 2362
Number of HSP's gapped (non-prelim): 42
length of query: 829
length of database: 14,973,337
effective HSP length: 107
effective length of query: 722
effective length of database: 8,277,491
effective search space: 5976348502
effective search space used: 5976348502
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: 56 (26.2 bits)