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= 044858
(426 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 66/238 (27%), Positives = 103/238 (43%), Gaps = 37/238 (15%)
Query: 153 FESRKSTLKGILDALSNRNF--NMIGVYGMGGIGKTTLVKEVGRQAKENNLFEKVISSRV 210
F +RK + I L N + +YGM G GK+ L E R +++L E S V
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVR---DHSLLEGCFSGGV 182
Query: 211 SQTPQIKEIQREIAEKLG---LKIDQES-----------ESVRAWRLLEQLKKETKILII 256
K+ + + KL +++DQE E+ R+L L+K + L+I
Sbjct: 183 HWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVL-MLRKHPRSLLI 241
Query: 257 LDDIWGSLDLEAIGIPLADDNGGCKVLLTARSQDVLSCEMDCQQNFVVDVLNDKEA---- 312
LDD+W L+A + C++LLT R + V M + V+ +E
Sbjct: 242 LDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEI 294
Query: 313 WSLFKKMTGDCIENGELKSVVTEVVKECAGLPIAIVPIAKALKNKSPYEWRNALRQLK 370
SLF M + +L + ++KEC G P+ +V + AL P W LRQL+
Sbjct: 295 LSLFVNMKKE-----DLPAEAHSIIKECKGSPL-VVSLIGALLRDFPNRWAYYLRQLQ 346
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 64/247 (25%), Positives = 104/247 (42%), Gaps = 55/247 (22%)
Query: 153 FESRKSTLKGILDALSNRNF--NMIGVYGMGGIGKTTLVKE------------------- 191
F +RK + I LS + ++GM G GK+ L E
Sbjct: 132 FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWV 191
Query: 192 -VGRQAKENNLFE-KVISSRVSQTPQIKEIQREIAEKLGLKIDQESESVRAWRLLEQLKK 249
VG+Q K L + + + +R+ Q +++L L I++ + +R + L+K
Sbjct: 192 SVGKQDKSGLLMKLQNLCTRLDQ-------DESFSQRLPLNIEEAKDRLR----ILMLRK 240
Query: 250 ETKILIILDDIWGSLDLEAIGIPLADDNGGCKVLLTARSQDVLSCEMDCQQNFVVDVLND 309
+ L+ILDD+W S L+A + C++LLT R + V M +VV V +
Sbjct: 241 HPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVMG--PKYVVPVESS 291
Query: 310 ------KEAWSLFKKMTGDCIENGELKSVVTEVVKECAGLPIAIVPIAKALKNKSPYEWR 363
E SLF M + +L ++KEC G P+ +V + AL P W
Sbjct: 292 LGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKGSPL-VVSLIGALLRDFPNRWE 345
Query: 364 NALRQLK 370
L+QL+
Sbjct: 346 YYLKQLQ 352
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 64/247 (25%), Positives = 104/247 (42%), Gaps = 55/247 (22%)
Query: 153 FESRKSTLKGILDALSNRN--FNMIGVYGMGGIGKTTLVKE------------------- 191
F +RK + I LS + ++GM G GK+ L E
Sbjct: 126 FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWV 185
Query: 192 -VGRQAKENNLFE-KVISSRVSQTPQIKEIQREIAEKLGLKIDQESESVRAWRLLEQLKK 249
VG+Q K L + + + +R+ Q +++L L I++ + +R + L+K
Sbjct: 186 SVGKQDKSGLLMKLQNLCTRLDQ-------DESFSQRLPLNIEEAKDRLR----ILMLRK 234
Query: 250 ETKILIILDDIWGSLDLEAIGIPLADDNGGCKVLLTARSQDVLSCEMDCQQNFVVDVLND 309
+ L+ILDD+W S L+A + C++LLT R + V M +VV V +
Sbjct: 235 HPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVMG--PKYVVPVESS 285
Query: 310 ------KEAWSLFKKMTGDCIENGELKSVVTEVVKECAGLPIAIVPIAKALKNKSPYEWR 363
E SLF M + +L ++KEC G P+ +V + AL P W
Sbjct: 286 LGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKGSPL-VVSLIGALLRDFPNRWE 339
Query: 364 NALRQLK 370
L+QL+
Sbjct: 340 YYLKQLQ 346
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 65/238 (27%), Positives = 102/238 (42%), Gaps = 37/238 (15%)
Query: 153 FESRKSTLKGILDALSNRNF--NMIGVYGMGGIGKTTLVKEVGRQAKENNLFEKVISSRV 210
F +RK + I L N + +YGM G GK+ L E R +++L E S V
Sbjct: 133 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVR---DHSLLEGCFSGGV 189
Query: 211 SQTPQIKEIQREIAEKLG---LKIDQES-----------ESVRAWRLLEQLKKETKILII 256
K+ + + KL +++DQE E+ R+L L+K + L+I
Sbjct: 190 HWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVL-MLRKHPRSLLI 248
Query: 257 LDDIWGSLDLEAIGIPLADDNGGCKVLLTARSQDVLSCEMDCQQNFVVDVLNDKEA---- 312
LDD+W L+A + C++LLT + V M + V+ +E
Sbjct: 249 LDDVWDPWVLKAF-------DNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEI 301
Query: 313 WSLFKKMTGDCIENGELKSVVTEVVKECAGLPIAIVPIAKALKNKSPYEWRNALRQLK 370
SLF M + +L + ++KEC G P+ +V + AL P W LRQL+
Sbjct: 302 LSLFVNMKKE-----DLPAEAHSIIKECKGSPL-VVSLIGALLRDFPNRWAYYLRQLQ 353
>pdb|1VZO|A Chain A, The Structure Of The N-Terminal Kinase Domain Of Msk1
Reveals A Novel Autoinhibitory Conformation For A Dual
Kinase Protein
Length = 355
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/114 (24%), Positives = 48/114 (42%), Gaps = 11/114 (9%)
Query: 154 ESRKSTLKGILDALSNRNFNMIGVYGMGGIGKTTLVKEVGRQAKENNLFEKVISSRV--- 210
E R + L G + + NF ++ V G G GK LV+++ KV+
Sbjct: 38 ELRTANLTGHAEKVGIENFELLKVLGTGAYGKVFLVRKISGHDTGKLYAMKVLKKATIVQ 97
Query: 211 -SQTPQIKEIQREIAEKLGLKIDQESESVRAWRLLEQLKKETKILIILDDIWGS 263
++T + +R++ E + +S L + ETK+ +ILD I G
Sbjct: 98 KAKTTEHTRTERQVLEHI-------RQSPFLVTLHYAFQTETKLHLILDYINGG 144
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 52/94 (55%), Gaps = 8/94 (8%)
Query: 173 NMIGVYGMGGIGKTTLVKEVGRQAKENNL--FEKV-ISSRVSQTPQIKEIQREIAEKLGL 229
N I +YG+ G GKT +VK V + + L F+ V I++R TP + ++ E L +
Sbjct: 46 NNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPY--RVLADLLESLDV 103
Query: 230 KIDQESESVRAW--RLLEQLKKE-TKILIILDDI 260
K+ S+ RL++ ++ ++++I+LD+I
Sbjct: 104 KVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEI 137
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/49 (22%), Positives = 25/49 (51%)
Query: 145 KSTQDFMHFESRKSTLKGILDALSNRNFNMIGVYGMGGIGKTTLVKEVG 193
S+ +++ +L ++D ++ +I + G GG+GKTT+ +
Sbjct: 300 PSSDEYLQQRPDIPSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIA 348
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 52/93 (55%), Gaps = 11/93 (11%)
Query: 177 VYGMGGIGKTTLVKEVGR--QAKENNLFEKV----ISSRVSQTPQIKEIQREIAEKLGLK 230
+YG+ G GKT + + V R +A+ ++L V +++R +TP + IAE +G++
Sbjct: 49 LYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPY--RVASAIAEAVGVR 106
Query: 231 IDQESESVRAW--RLLEQLKKETKI-LIILDDI 260
+ SV RL+++L + I +I+LD+I
Sbjct: 107 VPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEI 139
>pdb|1L8Q|A Chain A, Crystal Structure Of Dna Replication Initiation Factor
Length = 324
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 146 STQDFMHFESRKSTLKGILDALSNRN--FNMIGVYGMGGIGKTTLVKEVGRQAKENNLFE 203
+ ++F+ E + + + +AL N +N I +YG G GKT L++ G +AK+
Sbjct: 9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGY-- 66
Query: 204 KVISSRVSQTPQ 215
+VI S Q
Sbjct: 67 RVIYSSADDFAQ 78
>pdb|2HCB|A Chain A, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|B Chain B, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|C Chain C, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|D Chain D, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
Length = 323
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 146 STQDFMHFESRKSTLKGILDALSNRN--FNMIGVYGMGGIGKTTLVKEVGRQAKENNLFE 203
+ ++F+ E + + + +AL N +N I +YG G GKT L++ G +AK+
Sbjct: 8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGY-- 65
Query: 204 KVISSRVSQTPQ 215
+VI S Q
Sbjct: 66 RVIYSSADDFAQ 77
>pdb|3R8F|A Chain A, Protein-Dna Complex
pdb|3R8F|B Chain B, Protein-Dna Complex
pdb|3R8F|C Chain C, Protein-Dna Complex
pdb|3R8F|D Chain D, Protein-Dna Complex
Length = 324
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 146 STQDFMHFESRKSTLKGILDALSNRN--FNMIGVYGMGGIGKTTLVKEVGRQAKENNLFE 203
+ ++F+ E + + + +AL N +N I +YG G GKT L++ G +AK+
Sbjct: 9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGY-- 66
Query: 204 KVISSRVSQTPQ 215
+VI S Q
Sbjct: 67 RVIYSSADDFAQ 78
>pdb|2JFQ|A Chain A, Crystal Structure Of Staphylococcus Aureus Glutamate
Racemase In Complex With D-Glutamate
pdb|2JFQ|B Chain B, Crystal Structure Of Staphylococcus Aureus Glutamate
Racemase In Complex With D-Glutamate
Length = 286
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 51/115 (44%), Gaps = 17/115 (14%)
Query: 182 GIGKTTLVKEVGRQAKENNLFEKVISSRVSQTP----QIKEIQREIAEKLGLKIDQESES 237
G+G T+ KE+ RQ ++ R P Q+K+ EIA KL ++ D +
Sbjct: 31 GVGGLTVAKEIMRQLPNETIYYLGDIGRCPYGPRPGEQVKQYTVEIARKL-MEFDIK--- 86
Query: 238 VRAWRLLEQLKKETKILIILDDIWGSLDLEAIGIPLADDNGGCKVLLTARSQDVL 292
+ + T + L+ + +L + IG+ + G ++T R+Q+VL
Sbjct: 87 ------MLVIACNTATAVALEYLQKTLSISVIGV---IEPGARTAIMTTRNQNVL 132
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
0.318 0.134 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,580,277
Number of Sequences: 62578
Number of extensions: 453130
Number of successful extensions: 1578
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1562
Number of HSP's gapped (non-prelim): 34
length of query: 426
length of database: 14,973,337
effective HSP length: 102
effective length of query: 324
effective length of database: 8,590,381
effective search space: 2783283444
effective search space used: 2783283444
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)