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= 002641
(897 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 75.5 bits (184), Expect = 1e-13, Method: Composition-based stats.
Identities = 34/71 (47%), Positives = 47/71 (66%), Gaps = 1/71 (1%)
Query: 161 PKDFVCPITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSSTKLPKTNYVL 220
P+ F CPI+ + DPV + TGQTYER +IQ+W++ G+ +CP +++ L L NYVL
Sbjct: 6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL-TPNYVL 64
Query: 221 KRLIASWQEQN 231
K LIA W E N
Sbjct: 65 KSLIALWCESN 75
>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 = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 827 FSGHSDGTIKVWTGRGSILH---LIQQIREHTKAVTGLAILQSGEMLYSGSLDKTAR 880
FS SDG I VW LH L++Q + HT + + I G L++G LD T R
Sbjct: 157 FSCCSDGNIAVWD-----LHNQTLVRQFQGHTDGASCIDISNDGTKLWTGGLDNTVR 208
>pdb|2OXQ|C Chain C, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|D Chain D, Structure Of The Ubch5 :chip U-Box Complex
Length = 80
Score = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 2/70 (2%)
Query: 163 DFVC-PITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSSTKLPKTNYVLK 221
D++C I+ + +P +G TY+R+ I+E ++R P+TR L+ +L N +K
Sbjct: 12 DYLCGKISFELMAEPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQL-IPNLAMK 70
Query: 222 RLIASWQEQN 231
+I ++ ++N
Sbjct: 71 EVIDAFIQEN 80
>pdb|2F42|A Chain A, Dimerization And U-Box Domains Of Zebrafish C-Terminal Of
Hsp70 Interacting Protein
Length = 179
Score = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 2/70 (2%)
Query: 163 DFVC-PITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSSTKLPKTNYVLK 221
D++C I+ + +P +G TY+R+ I+E ++R P+TR L+ +L N +K
Sbjct: 105 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLI-PNLAMK 163
Query: 222 RLIASWQEQN 231
+I ++ ++N
Sbjct: 164 EVIDAFIQEN 173
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFRDK--IFSGHSDGTIKVWTGRGSILHLIQQ 850
D + WN +L+ + + V +A D I S D T+K+W G L+Q
Sbjct: 119 DKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNG---QLLQT 175
Query: 851 IREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 176 LTGHSSSVWGVAFSPDGQTIASASDDKTVKL 206
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFRDK--IFSGHSDGTIKVWTGRGSILHLIQQ 850
D + WN +L+ + + V +A D I S D T+K+W G L+Q
Sbjct: 37 DKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNG---QLLQT 93
Query: 851 IREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 94 LTGHSSSVRGVAFSPDGQTIASASDDKTVKL 124
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFRD--KIFSGHSDGTIKVWTGRGSILHLIQQ 850
D + WN +L+ + + V +A D I S D T+K+W G L+Q
Sbjct: 406 DKTVKLWNRNGQLLQTLTGHSSSVWGVAFSPDDQTIASASDDKTVKLWNRNG---QLLQT 462
Query: 851 IREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 463 LTGHSSSVRGVAFSPDGQTIASASDDKTVKL 493
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFRDK--IFSGHSDGTIKVWTGRGSILHLIQQ 850
D + WN +L+ + + V +A D I S D T+K+W G L+Q
Sbjct: 201 DKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNG---QLLQT 257
Query: 851 IREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 258 LTGHSSSVNGVAFRPDGQTIASASDDKTVKL 288
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFRDK--IFSGHSDGTIKVWTGRGSILHLIQQ 850
D + WN +L+ + + V +A D I S D T+K+W G L+Q
Sbjct: 488 DKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNG---QLLQT 544
Query: 851 IREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 545 LTGHSSSVWGVAFSPDGQTIASASSDKTVKL 575
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFRDK--IFSGHSDGTIKVWTGRGSILHLIQQ 850
D + WN +L+ + + V +A D I S D T+K+W G L+Q
Sbjct: 78 DKTVKLWNRNGQLLQTLTGHSSSVRGVAFSPDGQTIASASDDKTVKLWNRNG---QLLQT 134
Query: 851 IREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 135 LTGHSSSVWGVAFSPDGQTIASASDDKTVKL 165
Score = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 44/92 (47%), Gaps = 8/92 (8%)
Query: 794 DSSADFWNHR-ELVHVDSSENGKVLSIACFR---DKIFSGHSDGTIKVWTGRGSILHLIQ 849
D + WN +L+ + + V +A FR I S D T+K+W G L+Q
Sbjct: 242 DKTVKLWNRNGQLLQTLTGHSSSVNGVA-FRPDGQTIASASDDKTVKLWNRNG---QLLQ 297
Query: 850 QIREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 298 TLTGHSSSVWGVAFSPDGQTIASASDDKTVKL 329
Score = 33.9 bits (76), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 8/92 (8%)
Query: 794 DSSADFWNHRELVHVDS--SENGKVLSIACFRDK--IFSGHSDGTIKVWTGRGSILHLIQ 849
D + WN R H+ + + V +A D I S D T+K+W G L+Q
Sbjct: 324 DKTVKLWN-RNGQHLQTLTGHSSSVWGVAFSPDGQTIASASDDKTVKLWNRNG---QLLQ 379
Query: 850 QIREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+ H+ +V G+A G+ + S S DKT ++
Sbjct: 380 TLTGHSSSVRGVAFSPDGQTIASASDDKTVKL 411
>pdb|2C2V|S Chain S, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|T Chain T, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|U Chain U, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|V Chain V, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
Length = 78
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 163 DFVC-PITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSSTKLPKTNYVLK 221
D++C I+ + +P +G TY+R+ I+E ++R P+TR L+ +L N +K
Sbjct: 4 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL-IPNLAMK 62
Query: 222 RLIASWQEQN 231
+I ++ +N
Sbjct: 63 EVIDAFISEN 72
>pdb|2C2L|A Chain A, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|B Chain B, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|C Chain C, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|D Chain D, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
Length = 281
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 163 DFVC-PITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSSTKLPKTNYVLK 221
D++C I+ + +P +G TY+R+ I+E ++R P+TR L+ +L N +K
Sbjct: 207 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL-IPNLAMK 265
Query: 222 RLIASWQEQN 231
+I ++ +N
Sbjct: 266 EVIDAFISEN 275
>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 = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 46/101 (45%), Gaps = 9/101 (8%)
Query: 790 SNGHDSSADFWNHRELVHVDSSENGKVLSIACFRDKIF--SGHSDGTIKVWTGRGSIL-- 845
S G D A W+ E H+ + + G +++ CF + + +IK+W G I+
Sbjct: 232 SGGKDGQAMLWDLNEGKHLYTLDGGDIINALCFSPNRYWLCAATGPSIKIWDLEGKIIVD 291
Query: 846 HLIQQ-IREHTKA----VTGLAILQSGEMLYSGSLDKTARV 881
L Q+ I +KA T LA G+ L++G D RV
Sbjct: 292 ELKQEVISTSSKAEPPQCTSLAWSADGQTLFAGYTDNLVRV 332
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 811 SENGKVLSIAC---FRDKIFSGHSDGTIKVWT-GRGSILHLIQQ--IREHTKAVTGLAIL 864
NG V IA F D I S D TI +W R + I Q +R H+ V+ + I
Sbjct: 36 GHNGWVTQIATTPQFPDMILSASRDKTIIMWKLTRDETNYGIPQRALRGHSHFVSDVVIS 95
Query: 865 QSGEMLYSGSLDKTARV 881
G+ SGS D T R+
Sbjct: 96 SDGQFALSGSWDGTLRL 112
>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 = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 44/101 (43%), Gaps = 9/101 (8%)
Query: 790 SNGHDSSADFWNHRELVHVDSSENGKVLSIACFRDKIF--SGHSDGTIKVWTGRGSIL-- 845
S G D A W+ E H+ + + G +++ CF + + +IK+W G I+
Sbjct: 209 SGGKDGQAMLWDLNEGKHLYTLDGGDIINALCFSPNRYWLCAATGPSIKIWDLEGKIIVD 268
Query: 846 HLIQQI-----REHTKAVTGLAILQSGEMLYSGSLDKTARV 881
L Q++ + T LA G+ L++G D RV
Sbjct: 269 ELKQEVISTSSKAEPPQCTSLAWSADGQTLFAGYTDNLVRV 309
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 811 SENGKVLSIAC---FRDKIFSGHSDGTIKVWT-GRGSILHLIQQ--IREHTKAVTGLAIL 864
NG V IA F D I S D TI +W R + I Q +R H+ V+ + I
Sbjct: 13 GHNGWVTQIATTPQFPDMILSASRDKTIIMWKLTRDETNYGIPQRALRGHSHFVSDVVIS 72
Query: 865 QSGEMLYSGSLDKTARV 881
G+ SGS D T R+
Sbjct: 73 SDGQFALSGSWDGTLRL 89
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 34.3 bits (77), Expect = 0.29, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 7/62 (11%)
Query: 156 GKHTPPKDFV-------CPITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKL 208
G PKD + C I I +PVTL T + Q +E+ + CP R+++
Sbjct: 1 GSMALPKDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60
Query: 209 SS 210
SS
Sbjct: 61 SS 62
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 163 DFVCPITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSS 210
+ C I + F + VTL ++ I EW++R CPI R+ + S
Sbjct: 53 ELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK-IECPICRKDIKS 99
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 163 DFVCPITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSS 210
+ C I + F + VTL ++ I EW++R CPI R+ + S
Sbjct: 53 ELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK-IECPICRKDIKS 99
>pdb|1ERJ|A Chain A, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
pdb|1ERJ|B Chain B, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
pdb|1ERJ|C Chain C, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
Length = 393
Score = 33.1 bits (74), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 6/83 (7%)
Query: 802 HRELVHVDSSENGKVLSIACF--RDKIFSGHSDGTIKVWTGRGSILHLIQQIREHTKAVT 859
+R++V + + S+ F DK+ SG D T+++W R L I + VT
Sbjct: 154 NRKIVMILQGHEQDIYSLDYFPSGDKLVSGSGDRTVRIWDLRTGQCSLTLSIED---GVT 210
Query: 860 GLAILQS-GEMLYSGSLDKTARV 881
+A+ G+ + +GSLD+ RV
Sbjct: 211 TVAVSPGDGKYIAAGSLDRAVRV 233
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 32.7 bits (73), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 163 DFVCPITTHIFDDPVTLETGQTYERRAIQEWIERGNSSCPITRQKLSS 210
+ C I + F + VTL ++ I EW++R CPI R+ + S
Sbjct: 64 ELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK-IECPICRKDIKS 110
>pdb|4A73|A Chain A, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
pdb|4A73|B Chain B, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
pdb|4A73|C Chain C, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
pdb|4A73|D Chain D, Single Point Mutant Of Thermus Thermophilus Lactate
Dehydrogenase
Length = 310
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%)
Query: 35 ELLDENCRVFASYFKQVLENSNDSGLIIVTPPSVVLRKI 73
+LLD N +VFA +VLE + ++ L++ T P V+ ++
Sbjct: 87 QLLDRNAQVFAQVVPRVLEAAPEAVLLVATNPVDVMTQV 125
>pdb|2XXB|A Chain A, Penta-Mutant Of Thermus Thermophilus Lactate
Dehydrogenase, Complex With Amp
pdb|2XXB|B Chain B, Penta-Mutant Of Thermus Thermophilus Lactate
Dehydrogenase, Complex With Amp
pdb|2XXJ|A Chain A, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|2XXJ|B Chain B, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|2XXJ|C Chain C, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|2XXJ|D Chain D, Penta Mutant Of Lactate Dehydrogenase From Thermus
Thermophilus, Ternary Complex
pdb|3ZZN|A Chain A, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
pdb|3ZZN|B Chain B, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
pdb|3ZZN|C Chain C, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
pdb|3ZZN|D Chain D, 5-Mutant (R79w, R151a, E279a, E299a,E313a)
Lactate-Dehydrogenase From Thermus Thermophillus
Length = 310
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%)
Query: 35 ELLDENCRVFASYFKQVLENSNDSGLIIVTPPSVVLRKI 73
+LLD N +VFA +VLE + ++ L++ T P V+ ++
Sbjct: 87 QLLDRNAQVFAQVVPRVLEAAPEAVLLVATNPVDVMTQV 125
>pdb|2V6M|A Chain A, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V6M|B Chain B, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V6M|C Chain C, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V6M|D Chain D, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Apo Form)
pdb|2V7P|A Chain A, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
pdb|2V7P|B Chain B, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
pdb|2V7P|C Chain C, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
pdb|2V7P|D Chain D, Crystal Structure Of Lactate Dehydrogenase From Thermus
Thermophilus Hb8 (Holo Form)
Length = 310
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%)
Query: 35 ELLDENCRVFASYFKQVLENSNDSGLIIVTPPSVVLRKI 73
+LLD N +VFA +VLE + ++ L++ T P V+ ++
Sbjct: 87 QLLDRNAQVFAQVVPRVLEAAPEAVLLVATNPVDVMTQV 125
>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 = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 776 RKYSPLAFEMVKVLSNGHDSSADFWN--HRELVHVDSSENGKVLSIACFRDKIFSGHSDG 833
R YS L F+ + V+S D+S W+ +H + + + + SG++D
Sbjct: 281 RVYS-LQFDGIHVVSGSLDTSIRVWDVETGNCIHTLTGHQSLTSGMELKDNILVSGNADS 339
Query: 834 TIKVWTGR-GSILHLIQQIREHTKAVTGL 861
T+K+W + G L +Q +H AVT L
Sbjct: 340 TVKIWDIKTGQCLQTLQGPNKHQSAVTCL 368
>pdb|2E37|A Chain A, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|B Chain B, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|C Chain C, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|D Chain D, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|E Chain E, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|F Chain F, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|G Chain G, Structure Of Tt0471 Protein From Thermus Thermophilus
pdb|2E37|H Chain H, Structure Of Tt0471 Protein From Thermus Thermophilus
Length = 310
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 35 ELLDENCRVFASYFKQVLENSNDSGLIIVTPP 66
+LLD N +VFA +VLE + ++ L++ T P
Sbjct: 87 QLLDRNAQVFAQVVPRVLEAAPEAVLLVATNP 118
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine
Apaf-1
Length = 1256
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 18/107 (16%)
Query: 788 VLSNGHDSSADFWNHRE------LVHVDSSENGKVLSIACFRDKIFSGHSDGTIKVW--- 838
++S+ DS WN + H ++ ++ ++L + ++ S DGT+KVW
Sbjct: 1025 LISSSEDSVIQVWNWQTGDYVFLQAHQETVKDFRLLQDS----RLLSWSFDGTVKVWNVI 1080
Query: 839 TGRGSILHLIQQIREHTKAVTGLAILQSGEMLYSGSLDKTARVRSND 885
TGR + + H V AI S S DKTA++ S D
Sbjct: 1081 TGR-----IERDFTCHQGTVLSCAISSDATKFSSTSADKTAKIWSFD 1122
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 18/107 (16%)
Query: 788 VLSNGHDSSADFWNHRE------LVHVDSSENGKVLSIACFRDKIFSGHSDGTIKVW--- 838
++S+ DS WN + H ++ ++ ++L + ++ S DGT+KVW
Sbjct: 1018 LISSSEDSVIQVWNWQTGDYVFLQAHQETVKDFRLLQDS----RLLSWSFDGTVKVWNVI 1073
Query: 839 TGRGSILHLIQQIREHTKAVTGLAILQSGEMLYSGSLDKTARVRSND 885
TGR + + H V AI S S DKTA++ S D
Sbjct: 1074 TGR-----IERDFTCHQGTVLSCAISSDATKFSSTSADKTAKIWSFD 1115
>pdb|1P22|A Chain A, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 435
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 783 FEMVKVLSNGHDSSADFWNHRELVHVDSSENGKVLSIAC--FRDK-IFSGHSDGTIKVW 838
F+ ++S D + WN V + NG IAC +RD+ + SG SD TI++W
Sbjct: 264 FDDKYIVSASGDRTIKVWNTSTCEFV-RTLNGHKRGIACLQYRDRLVVSGSSDNTIRLW 321
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 48/106 (45%), Gaps = 12/106 (11%)
Query: 781 LAFEMVKVLSNGHDSSADFW--NHRELVHVDSSENGKVLSIACFRDKIFSGHSDGTIKVW 838
L ++ K++S D++ W N E + + G VL + I +G SD T++VW
Sbjct: 139 LQYDDQKIVSGLRDNTIKIWDKNTLECKRILTGHTGSVLCLQYDERVIITGSSDSTVRVW 198
Query: 839 ---TGRGSILHLIQQIREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
TG ++ + H +AV L + M+ + S D++ V
Sbjct: 199 DVNTG-----EMLNTLIHHCEAVLHLRF--NNGMMVTCSKDRSIAV 237
Score = 29.3 bits (64), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 4/76 (5%)
Query: 806 VHVDSSENGKVLSIACFRDKIFSGHSDGTIKVWTGRGSILHLIQQIREHTKAVTGLAILQ 865
+H S + V + KI SG D TIK+W + L + + HT +V L +
Sbjct: 126 IHCRSETSKGVYCLQYDDQKIVSGLRDNTIKIWD--KNTLECKRILTGHTGSV--LCLQY 181
Query: 866 SGEMLYSGSLDKTARV 881
++ +GS D T RV
Sbjct: 182 DERVIITGSSDSTVRV 197
>pdb|2HOY|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HOY|B Chain B, Inter-Subunit Signaling In Gsam
pdb|2HOZ|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HOZ|B Chain B, Inter-Subunit Signaling In Gsam
pdb|2HP1|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HP1|B Chain B, Inter-Subunit Signaling In Gsam
pdb|2HP2|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HP2|B Chain B, Inter-Subunit Signaling In Gsam
Length = 432
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 13/130 (10%)
Query: 272 AITSLCMSEILN---ESEMAVLQIERCWLEASMELDIQIMLSKPAVINGFVEILFNSVDP 328
A+ S+ M +N E+ MAVL+I R + + + +G ++
Sbjct: 109 AVPSIEMVRFVNSGTEACMAVLRIMRAYTGRDKIIKFE------GCYHGHADMFLVKAGS 162
Query: 329 RVLEATIFLLSELGSRDKSVIHTLTRVESDVERIVALFKK--GLLEAVVLIDLLRPSTRT 386
V AT+ L S G K+ +TLT +D+E + ALF + G + V+L ++ S
Sbjct: 163 GV--ATLGLPSSPGVPKKTTANTLTTPYNDLEAVKALFAENPGEIAGVILEPIVGNSGFI 220
Query: 387 LIEMDMMESL 396
+ + +E L
Sbjct: 221 VPDAGFLEGL 230
>pdb|3FQ7|A Chain A, Gabaculine Complex Of Gsam
pdb|3FQ7|B Chain B, Gabaculine Complex Of Gsam
pdb|3USF|A Chain A, Crystal Structure Of Dava-4
pdb|3USF|B Chain B, Crystal Structure Of Dava-4
Length = 427
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 13/130 (10%)
Query: 272 AITSLCMSEILN---ESEMAVLQIERCWLEASMELDIQIMLSKPAVINGFVEILFNSVDP 328
A+ S+ M +N E+ MAVL+I R + + + +G ++
Sbjct: 104 AVPSIEMVRFVNSGTEACMAVLRIMRAYTGRDKIIKFE------GCYHGHADMFLVKAGS 157
Query: 329 RVLEATIFLLSELGSRDKSVIHTLTRVESDVERIVALFKK--GLLEAVVLIDLLRPSTRT 386
V AT+ L S G K+ +TLT +D+E + ALF + G + V+L ++ S
Sbjct: 158 GV--ATLGLPSSPGVPKKTTANTLTTPYNDLEAVKALFAENPGEIAGVILEPIVGNSGFI 215
Query: 387 LIEMDMMESL 396
+ + +E L
Sbjct: 216 VPDAGFLEGL 225
>pdb|2PBI|B Chain B, The Multifunctional Nature Of Gbeta5RGS9 REVEALED FROM ITS
CRYSTAL Structure
pdb|2PBI|D Chain D, The Multifunctional Nature Of Gbeta5RGS9 REVEALED FROM ITS
CRYSTAL Structure
Length = 354
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 826 IFSGHSDGTIKVW-TGRGSILHLIQQIREHTKAVTGLAILQSGEMLYSGSLDKTARV 881
+F+G++D TI VW +GS + ++ H V+ L + G SGS D T RV
Sbjct: 299 LFAGYNDYTINVWDVLKGSRVSILFG---HENRVSTLRVSPDGTAFCSGSWDHTLRV 352
>pdb|3FQ8|A Chain A, M248i Mutant Of Gsam
pdb|3FQ8|B Chain B, M248i Mutant Of Gsam
Length = 427
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 13/130 (10%)
Query: 272 AITSLCMSEILN---ESEMAVLQIERCWLEASMELDIQIMLSKPAVINGFVEILFNSVDP 328
A+ S+ M +N E+ MAVL+I R + + + +G ++
Sbjct: 104 AVPSIEMVRFVNSGTEACMAVLRIMRAYTGRDKIIKFE------GCYHGHADMFLVKAGS 157
Query: 329 RVLEATIFLLSELGSRDKSVIHTLTRVESDVERIVALFKK--GLLEAVVLIDLLRPSTRT 386
V AT+ L S G K+ +TLT +D+E + ALF + G + V+L ++ S
Sbjct: 158 GV--ATLGLPSSPGVPKKTTANTLTTPYNDLEAVKALFAENPGEIAGVILEPIVGNSGFI 215
Query: 387 LIEMDMMESL 396
+ + +E L
Sbjct: 216 VPDAGFLEGL 225
>pdb|1LLW|A Chain A, Structural Studies On The Synchronization Of Catalytic
Centers In Glutamate Synthase: Complex With
2-Oxoglutarate
pdb|1LLZ|A Chain A, Structural Studies On The Synchronization Of Catalytic
Centers In Glutamate Synthase: Reduced Enzyme
pdb|1LM1|A Chain A, Structural Studies On The Synchronization Of Catalytic
Centers In Glutamate Synthase: Native Enzyme
pdb|1OFD|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate At 2.0 Angstrom Resolution
pdb|1OFD|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate At 2.0 Angstrom Resolution
pdb|1OFE|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
pdb|1OFE|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
Length = 1520
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 575 IYREEAIDTLISCLR-----NSDYPAAQLAAAKTIVSLQGRFTTSGKSL 618
+YR+ D ++ LR N+D PA L +++ S+ RF T G SL
Sbjct: 829 LYRQYLKDRPVTALRDLLDFNADQPAISLEEVESVESIVKRFCTGGMSL 877
>pdb|3CZP|A Chain A, Crystal Structure Of Putative Polyphosphate Kinase 2 From
Pseudomonas Aeruginosa Pa01
pdb|3CZP|B Chain B, Crystal Structure Of Putative Polyphosphate Kinase 2 From
Pseudomonas Aeruginosa Pa01
Length = 500
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 8/60 (13%)
Query: 286 EMAVLQIERCWLEASMELDIQIMLSKPAVINGF--------VEILFNSVDPRVLEATIFL 337
E AV+++ LEA EL Q +ING V++L DPR++E FL
Sbjct: 19 EKAVIELREALLEAQFELKQQARFPVIILINGIEGAGKGETVKLLNEWXDPRLIEVQSFL 78
>pdb|3ODT|A Chain A, Crystal Structure Of Wd40 Beta Propeller Domain Of Doa1
pdb|3ODT|B Chain B, Crystal Structure Of Wd40 Beta Propeller Domain Of Doa1
Length = 313
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 42/95 (44%), Gaps = 10/95 (10%)
Query: 781 LAFEMVKVLSNGHDSSADFWNHRELV-----HVDSSENGKVLSIACFRDKIFSGHSDGTI 835
L+F+ V+S D +A W LV H S + KV+S + +K + +D TI
Sbjct: 110 LSFQDGVVISGSWDKTAKVWKEGSLVYNLQAHNASVWDAKVVSFS--ENKFLTASADKTI 167
Query: 836 KVWTGRGSILHLIQQIREHTKAVTGLAILQSGEML 870
K+W ++ I H V LA++ G +
Sbjct: 168 KLWQ-NDKVIKTFSGI--HNDVVRHLAVVDDGHFI 199
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 0.132 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,656,493
Number of Sequences: 62578
Number of extensions: 838129
Number of successful extensions: 2084
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 2022
Number of HSP's gapped (non-prelim): 80
length of query: 897
length of database: 14,973,337
effective HSP length: 108
effective length of query: 789
effective length of database: 8,214,913
effective search space: 6481566357
effective search space used: 6481566357
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: 56 (26.2 bits)