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= 046930
(965 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 28/118 (23%), Positives = 54/118 (45%), Gaps = 5/118 (4%)
Query: 226 LEEAFTVFKKVEDLGLVADEFVYATLIDGVCRRGDLDCAFRLLEDMEKKGIKPSIVTYNT 285
L F +FK++ +V +E + + D + AF +++ M+ GI+P + +Y
Sbjct: 86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP 145
Query: 286 IINGLCKVGRTSDAEEVSKGILGDVVTY-----STLLHGYIEEDNVNGILETKQRLEE 338
+ G C+ G A EV ++ V + LL ++ N + + +T QRL +
Sbjct: 146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRD 203
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 36/71 (50%)
Query: 162 ICGQMVDKGIKPDTVSYTILLDGFSKEGTIEKAVGILNKMIEDRLRPNLITYTAIIFGFC 221
I QM+ + P+ ++T + E A ++ +M ++P L +Y +FGFC
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 222 KKGKLEEAFTV 232
+KG ++A+ V
Sbjct: 152 RKGDADKAYEV 162
Score = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 28/123 (22%), Positives = 52/123 (42%), Gaps = 11/123 (8%)
Query: 668 RQGCFVEAFRLFDSLERIDMVPSEVSYATLIYNLCKEGQ----------LLDAKKLFDRM 717
++G +EA RL+D R + S+ Y L+Y +C + L +F +M
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 718 VLKGFKPSTRIYNSFIDGYCKFGQLEEAFKFLHDLKINCLEPDKFTVSAVINGFCQKGDM 777
++ P+ + + E AF + +K ++P + + GFC+KGD
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 778 EGA 780
+ A
Sbjct: 157 DKA 159
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 209 NLITYTAIIFGFCKKGKLEEAFTVFKKVEDLGLVADEFVYATLIDGVCRR-GDLDCAFRL 267
L Y A++ G+ ++G +E V V+D GL D YA + + R+ D R
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223
Query: 268 LEDMEKKGIK 277
LE M ++G+K
Sbjct: 224 LEQMSQEGLK 233
>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha.
pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha
Length = 388
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 56/119 (47%), Gaps = 20/119 (16%)
Query: 708 LDAKKLFDRMVLKGFKPSTRIYNSFIDGYCKFGQLEEAFK-FLHDLKINCLEPDKFTVSA 766
LD F + +K Y++ + Y + GQL+EA + + H L+ L+PD +
Sbjct: 49 LDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALR---LKPD--FIDG 103
Query: 767 VIN---GFCQKGDMEGALGFFLDFNTKGVSPDFLGFLYLVKG-----LCTKGRMEEARS 817
IN GDMEGA+ ++ + +PD LY V+ L GR+EEA++
Sbjct: 104 YINLAAALVAAGDMEGAVQAYV--SALQYNPD----LYCVRSDLGNLLKALGRLEEAKA 156
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 32.7 bits (73), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 49/118 (41%), Gaps = 5/118 (4%)
Query: 226 LEEAFTVFKKVEDLGLVADEFVYATLIDGVCRRGDLDCAFRLLEDMEKKGIKPSIVTYNT 285
L F +FK+ +V +E + + D + AF ++ + GI+P + +Y
Sbjct: 86 LSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGP 145
Query: 286 IINGLCKVGRTSDAEEVSKGILGDVVTY-----STLLHGYIEEDNVNGILETKQRLEE 338
+ G C+ G A EV + V + LL + N + + +T QRL +
Sbjct: 146 ALFGFCRKGDADKAYEVDAHXVESEVVPEEPELAALLKVSXDTKNADKVYKTLQRLRD 203
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 206 LRPNLITYTAIIFGFCKKGKLEEAFTV 232
++P L +Y +FGFC+KG ++A+ V
Sbjct: 136 IQPRLRSYGPALFGFCRKGDADKAYEV 162
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 27/123 (21%), Positives = 50/123 (40%), Gaps = 11/123 (8%)
Query: 668 RQGCFVEAFRLFDSLERIDMVPSEVSYATLIYNLCKEGQ----------LLDAKKLFDRM 717
++G +EA RL+D R + S+ Y L+Y +C + L +F +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQX 96
Query: 718 VLKGFKPSTRIYNSFIDGYCKFGQLEEAFKFLHDLKINCLEPDKFTVSAVINGFCQKGDM 777
++ P+ + + E AF + K ++P + + GFC+KGD
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 778 EGA 780
+ A
Sbjct: 157 DKA 159
>pdb|2OUG|A Chain A, Crystal Structure Of The Rfah Transcription Factor At 2.1a
Resolution
pdb|2OUG|B Chain B, Crystal Structure Of The Rfah Transcription Factor At 2.1a
Resolution
pdb|2OUG|C Chain C, Crystal Structure Of The Rfah Transcription Factor At 2.1a
Resolution
pdb|2OUG|D Chain D, Crystal Structure Of The Rfah Transcription Factor At 2.1a
Resolution
Length = 162
Score = 30.8 bits (68), Expect = 3.9, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 736 YCKFGQLEEAFKFLHDLKINCLEPDKFTVSAVING 770
YCK GQL+ A + L +NCL P T+ ++ G
Sbjct: 8 YCKRGQLQRAQEHLERQAVNCLAP-MITLEKIVRG 41
>pdb|4DYD|A Chain A, Substrate-Directed Dual Catalysis Of Dicarbonyl Compounds
By Diketoreductase
pdb|4E12|A Chain A, Substrate-Directed Dual Catalysis Of Dicarbonyl Compounds
By Diketoreductase
pdb|4E13|A Chain A, Substrate-Directed Dual Catalysis Of Dicarbonyl Compounds
By Diketoreductase
Length = 283
Score = 30.0 bits (66), Expect = 6.9, Method: Composition-based stats.
Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 6/105 (5%)
Query: 305 GILGDVVTYSTLLHGY---IEEDNVNGILETKQRLEE-AGIQMDIVMCNILIKALFMVGA 360
G+LG + + T HG+ + N + + K+R E A + V A +G
Sbjct: 13 GVLGSQIAFQTAFHGFAVTAYDINTDALDAAKKRFEGLAAVYEKEVAGAADGAAQKALGG 72
Query: 361 LEDARALYQAMPEMNLVANSVTYSTMI--DGYCKLGRIEEALEIF 403
+ + L QA+ + +LV +V S + D Y KLG + A IF
Sbjct: 73 IRYSDDLAQAVKDADLVIEAVPESLDLKRDIYTKLGELAPAKTIF 117
>pdb|2GQS|A Chain A, Saicar Synthetase Complexed With Cair-Mg2+ And Adp
pdb|2GQS|B Chain B, Saicar Synthetase Complexed With Cair-Mg2+ And Adp
Length = 237
Score = 29.6 bits (65), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 8/97 (8%)
Query: 516 VVTDQSYYSILKGLDNEGKKWLIGPLLSMFVKENGLVEPMISKFLVQYLCLNDVTNALLF 575
VV +++ S++K L E L PL +F+K + + +PM+++ + N
Sbjct: 92 VVRNRAAGSLVKRLGIEEGIELNPPLFDLFLKNDAMHDPMVNESYCETFGWVSKEN---- 147
Query: 576 IKNMKEISSTVTIPVNVLKKLL-KAGSVLDVYKLVMG 611
+ MKE++ +VLKKL AG +L +KL G
Sbjct: 148 LARMKELTYKAN---DVLKKLFDDAGLILVDFKLEFG 181
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
0.323 0.140 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,394,438
Number of Sequences: 62578
Number of extensions: 1076230
Number of successful extensions: 2426
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2398
Number of HSP's gapped (non-prelim): 25
length of query: 965
length of database: 14,973,337
effective HSP length: 108
effective length of query: 857
effective length of database: 8,214,913
effective search space: 7040180441
effective search space used: 7040180441
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)