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= 013632
(439 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3E0J|A Chain A, X-Ray Structure Of The Complex Of Regulatory Subunits Of
Human Dna Polymerase Delta
pdb|3E0J|C Chain C, X-Ray Structure Of The Complex Of Regulatory Subunits Of
Human Dna Polymerase Delta
pdb|3E0J|E Chain E, X-Ray Structure Of The Complex Of Regulatory Subunits Of
Human Dna Polymerase Delta
pdb|3E0J|G Chain G, X-Ray Structure Of The Complex Of Regulatory Subunits Of
Human Dna Polymerase Delta
Length = 476
Score = 330 bits (846), Expect = 9e-91, Method: Compositional matrix adjust.
Identities = 181/426 (42%), Positives = 251/426 (58%), Gaps = 7/426 (1%)
Query: 15 ATYIFLDEPFEIQKETYRGQQYSQIYFARLHLMRALLYSLVP-NWKPHLPICTVLELEEG 73
ATY +PF + + ++ +QY+ IY RL MR L + +W + + + EL+
Sbjct: 37 ATYTNSSQPFRLGERSF-SRQYAHIYATRLIQMRPFLENRAQQHWGSGVGVKKLCELQPE 95
Query: 74 RECVIIGTLYKHMKLKPSILDEYSKERSTTPLVKPHNFMHPDDHLVLEDESGRVKLGGAE 133
+C ++GTL+K M L+PSIL E S+E + P ++HPDD LVLEDE R+KL G
Sbjct: 96 EKCCVVGTLFKAMPLQPSILREVSEEHNLLPQPPRSKYIHPDDELVLEDELQRIKLKGT- 154
Query: 134 LLPSAYVTGIVVALHGKETSAGEFLVLDVLDAGLAPQKELPLNSGEDKYXXXXXXXXXXX 193
+ S VTG V+A+ G G+FLV D A LAPQK P +
Sbjct: 155 IDVSKLVTGTVLAVFGSVRDDGKFLVEDYCFADLAPQKPAPPLDTDRFVLLVSGLGLGGG 214
Query: 194 XXXXPLQFQLLVDHITGHLGDEKEQGIAAEIVHVVIAGN----SIEIPRGLLNGQNLASK 249
L QLLVD +TG LGDE EQ AA + V++AGN S + + + L K
Sbjct: 215 GGESLLGTQLLVDVVTGQLGDEGEQCSAAHVSRVILAGNLLSHSTQSRDSINKAKYLTKK 274
Query: 250 DQSRLFEPIKELDILLTQIAAGVPLDIMPGPNDPANFSLPQQPLNRCLFPGSATYNTFRS 309
Q+ E +K LD +L Q++A VP+D+MPG DP N++LPQQPL+ C+FP + Y+T +
Sbjct: 275 TQAASVEAVKMLDEILLQLSASVPVDVMPGEFDPTNYTLPQQPLHPCMFPLATAYSTLQL 334
Query: 310 CTNPHCFELDNVRFLGTSGQTIDDLQKYSEANDQLEFMERTLRWRHLAPTAPNTLGCYPF 369
TNP+ +D VRFLGTSGQ + D+ +YS D LE +E TLR RH++PTAP+TLGCYPF
Sbjct: 335 VTNPYQATIDGVRFLGTSGQNVSDIFRYSSMEDHLEILEWTLRVRHISPTAPDTLGCYPF 394
Query: 370 TDRDPFLVESCPHVYFAGNQQKFETRLLKGSDRQLVRLVCIPKFSETGVAVVVNLKNLEC 429
DPF+ CPHVYF GN F +++++G + Q V LV +P FS T A +VNL++L C
Sbjct: 395 YKTDPFIFPECPHVYFCGNTPSFGSKIIRGPEDQTVLLVTVPDFSATQTACLVNLRSLAC 454
Query: 430 HTLSFG 435
+SF
Sbjct: 455 QPISFS 460
>pdb|1NVP|D Chain D, Human TfiiaTBPDNA COMPLEX
Length = 108
Score = 32.7 bits (73), Expect = 0.37, Method: Composition-based stats.
Identities = 25/70 (35%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 254 LFEPIKELDILLTQIAAGVPLDIMPGPNDPANFSLPQQPLNRCLFPGSATYNTFRSCTNP 313
L E + EL I QI + L ++ + N +L Q+ NR F GS NT+R C N
Sbjct: 14 LQESLDEL-IQSQQITPQLALQVLLQFDKAINAALAQRVRNRVNFRGS--LNTYRFCDNV 70
Query: 314 HCFELDNVRF 323
F L++V F
Sbjct: 71 WTFVLNDVEF 80
>pdb|1COV|2 Chain 2, Coxsackievirus B3 Coat Protein
pdb|1JEW|2 Chain 2, Cryo-Em Structure Of Coxsackievirus B3(M Strain) With Its
Cellular Receptor, Coxsackievirus And Adenovirus
Receptor (Car)
Length = 263
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 272 VPLDIMPGPNDPANFSLPQQPLNRCLFPGSATYNTFRSCTNPHCFELDNVRFLG 325
VP+D M N+ +P PL+ C PGS TY P C E + +R G
Sbjct: 210 VPMDNMFRHNNVTLMVIPFVPLDYC--PGSTTYVPITVTIAPMCAEYNGLRLAG 261
>pdb|4GB3|2 Chain 2, Human Coxsackievirus B3 Strain Rd Coat Protein
Length = 263
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 272 VPLDIMPGPNDPANFSLPQQPLNRCLFPGSATYNTFRSCTNPHCFELDNVRFLG 325
VP+D M N+ +P PL+ C PGS TY P C E + +R G
Sbjct: 210 VPMDNMFRHNNVTLMVIPFVPLDYC--PGSTTYVPITVTIAPMCAEYNGLRLAG 261
>pdb|3P2P|A Chain A, Enhanced Activity And Altered Specificity Of Phospholipase
A2 By Deletion Of A Surface Loop
pdb|3P2P|B Chain B, Enhanced Activity And Altered Specificity Of Phospholipase
A2 By Deletion Of A Surface Loop
Length = 119
Score = 28.9 bits (63), Expect = 5.2, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 32/77 (41%), Gaps = 20/77 (25%)
Query: 295 RCLFPGSATYNTFRSCTNPHCFELDNVRFLGTSGQTIDDLQKYSEANDQLEFMERTLRWR 354
+C PGS F N C+ LG SG +D+L + E +D +R
Sbjct: 10 KCAIPGSHPLMDF---NNYGCY-----CGLGGSGTPVDELDRCCETHDNC--------YR 53
Query: 355 HLAPTAPNTLGCYPFTD 371
A N GCYP+T+
Sbjct: 54 ----DAKNLSGCYPYTE 66
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 0.138 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,180,646
Number of Sequences: 62578
Number of extensions: 557599
Number of successful extensions: 1050
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1046
Number of HSP's gapped (non-prelim): 6
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
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: 53 (25.0 bits)