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= psy834
(926 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W1W|A Chain A, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|B Chain B, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|C Chain C, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|D Chain D, Sc Smc1hd:scc1-c Complex, Atpgs
Length = 430
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 63/123 (51%), Gaps = 29/123 (23%)
Query: 430 KFDKVKHTRRQKFENMYDFVNDNIDATYKVHLKSSACQVYLIVSGWPKKKENLVIVVQSN 489
+F K+K R++ FE +D+V+D++DA Y+ K+ V L
Sbjct: 257 QFLKIKKKRKELFEKTFDYVSDHLDAIYRELTKNPNSNVEL------------------- 297
Query: 490 LFSPQALTQSFGHAFLDITGAEQEPYLAGMNFSCTPQGRSYVGIQHLSGGERTLAALAMI 549
+ G+A L I E EP+ AG+ + TP + + +++LSGGE+T+AALA++
Sbjct: 298 ---------AGGNASLTIED-EDEPFNAGIKYHATPPLKRFKDMEYLSGGEKTVAALALL 347
Query: 550 FTI 552
F I
Sbjct: 348 FAI 350
>pdb|4I99|A Chain A, Crystal Structure Of The Smchead Bound To The C-winged
Helix Domain Of Scpa
pdb|4I99|B Chain B, Crystal Structure Of The Smchead Bound To The C-winged
Helix Domain Of Scpa
Length = 354
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 512 QEPYLAGMNFSCTPQGRSYVGIQHLSGGERTLAALAMIFTIWKL 555
++P+ G+ P G+ I+ SGGE+ L ALA +F I K
Sbjct: 222 EDPFSGGLEIEAKPAGKDVKRIEAXSGGEKALTALAFVFAIQKF 265
>pdb|1XEW|Y Chain Y, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 38.9 bits (89), Expect = 0.012, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 512 QEPYLAGMNFSCTPQGRSYVGIQHLSGGERTLAALAMIFTIWKL 555
++P+ G+ P G+ I+ +SGGE+ L ALA +F I K
Sbjct: 40 EDPFSGGLEIEAKPAGKDVKRIEAMSGGEKALTALAFVFAIQKF 83
>pdb|1XEX|B Chain B, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 38.9 bits (89), Expect = 0.014, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 512 QEPYLAGMNFSCTPQGRSYVGIQHLSGGERTLAALAMIFTIWKL 555
++P+ G+ P G+ I+ +SGGE+ L ALA +F I K
Sbjct: 40 EDPFSGGLEIEAKPAGKDVKRIEAMSGGEKALTALAFVFAIQKF 83
>pdb|3KTA|B Chain B, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
pdb|3KTA|D Chain D, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
Length = 173
Score = 37.4 bits (85), Expect = 0.043, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 512 QEPYLAGMNFSCTPQGRSYVGIQHLSGGERTLAALAMIFTIWKL 555
++P+ G+ P G+ I+ SGGE+ L ALA +F I K
Sbjct: 41 EDPFSGGLEIEAKPAGKDVKRIEAXSGGEKALTALAFVFAIQKF 84
>pdb|3ZGX|A Chain A, Crystal Structure Of The Kleisin-n Smc Interface In
Prokaryotic Condensin
pdb|3ZGX|B Chain B, Crystal Structure Of The Kleisin-n Smc Interface In
Prokaryotic Condensin
Length = 426
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 517 AGMNFSCTPQGRSYVGIQHLSGGERTLAALAMIFTIWKL 555
+G+ P G+ + LSGGER L A+A++F+I K+
Sbjct: 310 SGVEIIAQPPGKKLQNLNLLSGGERALTAIALLFSILKV 348
>pdb|1OO8|A Chain A, Crystal Structure Of A1pi-Pittsburgh In The Native
Conformation
pdb|1OPH|A Chain A, Non-Covalent Complex Between Alpha-1-Pi-Pittsburgh And
S195a Trypsin
Length = 394
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 490 LFSPQALTQSFGHAFLDITGAEQEPYLAGMNFSCT--PQGRSYVGIQHL 536
LFSP ++ +F L G + L G+NF+ T P+ + + G Q L
Sbjct: 51 LFSPVSIAAAFAMLSLGAKGDTHDEILEGLNFNLTEIPEAQIHEGFQEL 99
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%)
Query: 501 GHAFLDITGAEQEPYLAGMNFSCTPQGRSYVGIQHLSGGERTLAALAMIFTIWKL 555
G L+I + AG S GR + LSGGE+ L LA++F + ++
Sbjct: 185 GEGRLNIVSEAKSILDAGFEISIRKPGRRDQKLSLLSGGEKALVGLALLFALMEI 239
>pdb|1IZ2|A Chain A, Interactions Causing The Kinetic Trap In Serpin Protein
Folding
Length = 394
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 490 LFSPQALTQSFGHAFLDITGAEQEPYLAGMNFSCT--PQGRSYVGIQHL 536
LFSP ++ +F L G + L G+NF+ T P+ + + G Q L
Sbjct: 51 LFSPVSIAAAFAMLSLGAKGDTHDEILEGLNFNLTEIPEAQIHEGFQEL 99
>pdb|1ATU|A Chain A, Uncleaved Alpha-1-Antitrypsin
Length = 374
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 490 LFSPQALTQSFGHAFLDITGAEQEPYLAGMNFSCT--PQGRSYVGIQHL 536
LFSP ++ +F L G + L G+NF+ T P+ + + G Q L
Sbjct: 31 LFSPVSIAAAFAMLSLGAKGDTHDEILEGLNFNLTEIPEAQIHEGFQEL 79
>pdb|2D26|A Chain A, Active Site Distortion Is Sufficient For Proteinase
Inhibit Second Crystal Structure Of Covalent
Serpin-Proteinase Complex
Length = 358
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 490 LFSPQALTQSFGHAFLDITGAEQEPYLAGMNFSCT--PQGRSYVGIQHL 536
LFSP ++ +F L G + L G+NF+ T P+ + + G Q L
Sbjct: 51 LFSPVSIAAAFAMLSLGAKGDTHDEILEGLNFNLTEIPEAQIHEGFQEL 99
>pdb|3CQ0|A Chain A, Crystal Structure Of Tal2_yeast
pdb|3CQ0|B Chain B, Crystal Structure Of Tal2_yeast
Length = 339
Score = 29.6 bits (65), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 396 LNKEQQRLAPLLDRLRRYEADLKALYK 422
LN++Q L D +R++ AD++ALYK
Sbjct: 301 LNEDQMATEKLSDGIRKFSADIEALYK 327
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
0.311 0.124 0.345
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,745,282
Number of Sequences: 62578
Number of extensions: 749118
Number of successful extensions: 1392
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1383
Number of HSP's gapped (non-prelim): 12
length of query: 926
length of database: 14,973,337
effective HSP length: 108
effective length of query: 818
effective length of database: 8,214,913
effective search space: 6719798834
effective search space used: 6719798834
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 56 (26.2 bits)