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= 008196
(574 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4I79|A Chain A, Crystal Structure Of Human Nup43
pdb|4I79|B Chain B, Crystal Structure Of Human Nup43
Length = 399
Score = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 40 LRVLDYSRNSRHLLVTAGDDGTLHLWDTTGRSPKVSWLKQHSAPTAGISF 89
L +D N +H++ T G DG L +WD + VS LK H A + F
Sbjct: 239 LHCVDRHPNQQHVVATGGQDGMLSIWDVRQGTMPVSLLKAHEAEMWEVHF 288
>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 = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 45/84 (53%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVL-DYSRNSRHL--------LVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + R + + +A DD T+ LW+ G+ +
Sbjct: 362 ASDDKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 421
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS DD+ ++S
Sbjct: 422 --LTGHSSSVWGVAFSPDDQTIAS 443
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVL-DYSRNSRHL--------LVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + R + + +A DD T+ LW+ G+ +
Sbjct: 75 ASDDKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 134
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 135 --LTGHSSSVWGVAFSPDGQTIAS 156
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVL-DYSRNSRHL--------LVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + R + + +A DD T+ LW+ G+ +
Sbjct: 485 ASDDKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 544
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 545 --LTGHSSSVWGVAFSPDGQTIAS 566
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVL-DYSRNSRHL--------LVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + R + + +A DD T+ LW+ G+ +
Sbjct: 444 ASDDKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 503
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 504 --LTGHSSSVRGVAFSPDGQTIAS 525
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNS---------RHLLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + +A DD T+ LW+ G+ +
Sbjct: 280 ASDDKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNGQHLQT 339
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 340 --LTGHSSSVWGVAFSPDGQTIAS 361
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 42/84 (50%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNSRH---------LLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + + +A DD T+ LW+ G+ +
Sbjct: 239 ASDDKTVKLWNRNGQLLQTLTGHSSSVNGVAFRPDGQTIASASDDKTVKLWNRNGQLLQT 298
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 299 --LTGHSSSVWGVAFSPDGQTIAS 320
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNS---------RHLLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + +A DD T+ LW+ G+ +
Sbjct: 116 ASDDKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 175
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 176 --LTGHSSSVWGVAFSPDGQTIAS 197
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNS---------RHLLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + +A DD T+ LW+ G+ +
Sbjct: 34 ASDDKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 93
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 94 --LTGHSSSVRGVAFSPDGQTIAS 115
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNS---------RHLLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + +A DD T+ LW+ G+ +
Sbjct: 157 ASDDKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 216
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 217 --LTGHSSSVRGVAFSPDGQTIAS 238
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNS---------RHLLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + +A DD T+ LW+ G+ +
Sbjct: 403 ASDDKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDDQTIASASDDKTVKLWNRNGQLLQT 462
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 463 --LTGHSSSVRGVAFSPDGQTIAS 484
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVL-DYSRNSRHL--------LVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q+L+ L +S + R + + +A DD T+ LW+ G+ +
Sbjct: 198 ASDDKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 257
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++F D + ++S
Sbjct: 258 --LTGHSSSVNGVAFRPDGQTIAS 279
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 24 ASGAKAAELKDPNEQVLRVLDYSRNS---------RHLLVTAGDDGTLHLWDTTGRSPKV 74
AS K +L + N Q L+ L +S + +A DD T+ LW+ G+ +
Sbjct: 321 ASDDKTVKLWNRNGQHLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNGQLLQT 380
Query: 75 SWLKQHSAPTAGISFSSDDKAVSS 98
L HS+ G++FS D + ++S
Sbjct: 381 --LTGHSSSVRGVAFSPDGQTIAS 402
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 53 LVTAGDDGTLHLWDTTGRSPKVSWLKQHSAPTAGISFSSDDKAVSS 98
+ +A DD T+ LW+ G+ + L HS+ G++FS D + ++S
Sbjct: 31 IASASDDKTVKLWNRNGQLLQT--LTGHSSSVWGVAFSPDGQTIAS 74
>pdb|4AOW|A Chain A, Crystal Structure Of The Human Rack1 Protein At A
Resolution Of 2.45 Angstrom
pdb|4AOW|B Chain B, Crystal Structure Of The Human Rack1 Protein At A
Resolution Of 2.45 Angstrom
pdb|4AOW|C Chain C, Crystal Structure Of The Human Rack1 Protein At A
Resolution Of 2.45 Angstrom
Length = 340
Score = 32.7 bits (73), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 55/125 (44%), Gaps = 7/125 (5%)
Query: 13 SLSGDLILHNLASGAKAAELKDPNEQVLRVLDYSRNSRHLLVTAGDDGTLHLWDTTGRSP 72
S G L L +L +G + VL V +S ++R + V+ D T+ LW+T G
Sbjct: 105 SWDGTLRLWDLTTGTTTRRFVGHTKDVLSVA-FSSDNRQI-VSGSRDKTIKLWNTLGVCK 162
Query: 73 KVSWLKQHSAPTAGISFS--SDDKAVSSLCWQRAKPVFIDETTCKAETALLG--GAVGDS 128
+ HS + + FS S + + S W + V+ + CK +T +G G +
Sbjct: 163 YTVQDESHSEWVSCVRFSPNSSNPIIVSCGWDKLVKVW-NLANCKLKTNHIGHTGYLNTV 221
Query: 129 ILMPD 133
+ PD
Sbjct: 222 TVSPD 226
>pdb|2ZKQ|AA Chain a, Structure Of A Mammalian Ribosomal 40s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 317
Score = 32.7 bits (73), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 55/125 (44%), Gaps = 7/125 (5%)
Query: 13 SLSGDLILHNLASGAKAAELKDPNEQVLRVLDYSRNSRHLLVTAGDDGTLHLWDTTGRSP 72
S G L L +L +G + VL V +S ++R + V+ D T+ LW+T G
Sbjct: 82 SWDGTLRLWDLTTGTTTRRFVGHTKDVLSVA-FSSDNRQI-VSGSRDKTIKLWNTLGVCK 139
Query: 73 KVSWLKQHSAPTAGISFS--SDDKAVSSLCWQRAKPVFIDETTCKAETALLG--GAVGDS 128
+ HS + + FS S + + S W + V+ + CK +T +G G +
Sbjct: 140 YTVQDESHSEWVSCVRFSPNSSNPIIVSCGWDKLVKVW-NLANCKLKTNHIGHTGYLNTV 198
Query: 129 ILMPD 133
+ PD
Sbjct: 199 TVSPD 203
>pdb|3OW8|A Chain A, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|B Chain B, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|C Chain C, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|D Chain D, Crystal Structure Of The Wd Repeat-Containing Protein 61
Length = 321
Score = 32.3 bits (72), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 2 YNCKDEHLASISLSGDLILHNLASGAKAAELKDPNEQVLRVLDYSRNSRHLLVTAGDDGT 61
Y+ ++LAS ++ G + + ++A+G K + + +R L +S +S+ LLVTA DDG
Sbjct: 172 YSPDGKYLASGAIDGIINIFDIATG-KLLHTLEGHAMPIRSLTFSPDSQ-LLVTASDDGY 229
Query: 62 LHLWDTTGRSPKVSWLKQHSAPTAGISFSSDD 93
+ ++D + + L H++ ++F DD
Sbjct: 230 IKIYDVQHANLAGT-LSGHASWVLNVAFCPDD 260
>pdb|1R5M|A Chain A, Crystal Structure Of The C-Terminal Wd40 Domain Of Sif2
Length = 425
Score = 32.0 bits (71), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 40 LRVLDYSRNSRHLLVTAGDDGTLHLWDTTGRSPKVSWLKQHSAPTAGISFSSDDKAVS 97
+ VL+++ ++ LL++A DDGTL +W G + HS S+ DDK +S
Sbjct: 250 ISVLEFN-DTNKLLLSASDDGTLRIWH-GGNGNSQNCFYGHSQSIVSASWVGDDKVIS 305
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 45/94 (47%), Gaps = 3/94 (3%)
Query: 6 DEHLASISLSGDLILHNLASGAKAAELKDPNEQVLRVLDYSRNSRHLLVTAG-DDGTLHL 64
D ++A+ S + + + A+G + +EQV ++ S HLL+ G +D L L
Sbjct: 676 DSYIATCSADKKVKIWDSATGKLVHTYDEHSEQV-NCCHFTNKSNHLLLATGSNDFFLKL 734
Query: 65 WDTTGRSPKVSWLKQHSAPTAGISFSSDDKAVSS 98
WD + + + + H+ FS DD+ ++S
Sbjct: 735 WDLNQKECRNT-MFGHTNSVNHCRFSPDDELLAS 767
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 45/94 (47%), Gaps = 3/94 (3%)
Query: 6 DEHLASISLSGDLILHNLASGAKAAELKDPNEQVLRVLDYSRNSRHLLVTAG-DDGTLHL 64
D ++A+ S + + + A+G + +EQV ++ S HLL+ G +D L L
Sbjct: 669 DSYIATCSADKKVKIWDSATGKLVHTYDEHSEQV-NCCHFTNKSNHLLLATGSNDFFLKL 727
Query: 65 WDTTGRSPKVSWLKQHSAPTAGISFSSDDKAVSS 98
WD + + + + H+ FS DD+ ++S
Sbjct: 728 WDLNQKECRNT-MFGHTNSVNHCRFSPDDELLAS 760
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 5/64 (7%)
Query: 5 KDEHLASISLSGDLILHNLASGAKAAELKDPNEQ--VLRVLDYSRNSRHLLVTAGDDGTL 62
KD L S + + + ++ +G L+ PN+ + L +++N ++T+ DDGT+
Sbjct: 328 KDNILVSGNADSTVKIWDIKTGQCLQTLQGPNKHQSAVTCLQFNKN---FVITSSDDGTV 384
Query: 63 HLWD 66
LWD
Sbjct: 385 KLWD 388
>pdb|4G56|B Chain B, Crystal Structure Of Full Length Prmt5/mep50 Complexes
From Xenopus Laevis
pdb|4G56|D Chain D, Crystal Structure Of Full Length Prmt5/mep50 Complexes
From Xenopus Laevis
Length = 357
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 14/68 (20%)
Query: 52 LLVTAGDDGTLHLWDTTGRSPKVSWLKQHSAPTAGISFSSDDKAVSSLCWQRAKPVFIDE 111
+ ++ G+DG + LWDT R PK P I F + D +S+ W K D
Sbjct: 196 IFLSCGEDGRILLWDT--RKPK---------PATRIDFCASDTIPTSVTWHPEKD---DT 241
Query: 112 TTCKAETA 119
C ET
Sbjct: 242 FACGDETG 249
>pdb|1CS1|A Chain A, Cystathionine Gamma-Synthase (Cgs) From Escherichia Coli
pdb|1CS1|B Chain B, Cystathionine Gamma-Synthase (Cgs) From Escherichia Coli
pdb|1CS1|C Chain C, Cystathionine Gamma-Synthase (Cgs) From Escherichia Coli
pdb|1CS1|D Chain D, Cystathionine Gamma-Synthase (Cgs) From Escherichia Coli
Length = 386
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 20/95 (21%)
Query: 23 LASGAKAAELKDPNEQVLRVLDYSRNSRHLLVTAGDDGTLHLWDTTGRSPKV-------- 74
LA K ++ P+ +LRV+D ++ HL A + G + + D T SP +
Sbjct: 134 LAEKPKLVLVESPSNPLLRVVDIAKIC-HL---AREVGAVSVVDNTFLSPALQNPLALGA 189
Query: 75 --------SWLKQHSAPTAGISFSSDDKAVSSLCW 101
+L HS AG+ + D V+ L W
Sbjct: 190 DLVLHSCTXYLNGHSDVVAGVVIAKDPDVVTELAW 224
>pdb|1GXR|A Chain A, Wd40 Region Of Human Groucho/tle1
pdb|1GXR|B Chain B, Wd40 Region Of Human Groucho/tle1
pdb|2CE8|A Chain A, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|B Chain B, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|C Chain C, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|D Chain D, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|A Chain A, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|B Chain B, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|C Chain C, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|D Chain D, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain
Length = 337
Score = 29.6 bits (65), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 6/63 (9%)
Query: 44 DYSRNSRHL-----LVTAGDDGTLHLWDTTGRSPKVSWLKQHSAPTA-GISFSSDDKAVS 97
+Y R+ + L L+ G+ TL +WD +P++ SAP ++ S D K
Sbjct: 98 NYIRSCKLLPDGCTLIVGGEASTLSIWDLAAPTPRIKAELTSSAPACYALAISPDSKVCF 157
Query: 98 SLC 100
S C
Sbjct: 158 SCC 160
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
0.312 0.129 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,175,602
Number of Sequences: 62578
Number of extensions: 517333
Number of successful extensions: 973
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 934
Number of HSP's gapped (non-prelim): 41
length of query: 574
length of database: 14,973,337
effective HSP length: 104
effective length of query: 470
effective length of database: 8,465,225
effective search space: 3978655750
effective search space used: 3978655750
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)