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= psy2072
(294 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 129 bits (323), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 58/104 (55%), Positives = 80/104 (76%), Gaps = 4/104 (3%)
Query: 90 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQEDP----QWCYDNFVNYRSLKSA 145
RP + KK ADDAK FAH DGDH+TLLNVYHAFK ++ +WC D+++NYRSL +A
Sbjct: 557 RPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAA 616
Query: 146 DNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQL 189
DN+R QL R+M+R+NL+ ++T++ S Y+ NIRK+L +GFFMQ+
Sbjct: 617 DNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQV 660
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/74 (45%), Positives = 55/74 (74%), Gaps = 3/74 (4%)
Query: 211 QWCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQD 270
+WC D+++NYRSL +ADN+R QL R+M+R+NL+ ++T++ S Y+ NIRK+L +GFFMQ
Sbjct: 601 KWCRDHYLNYRSLSAADNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQ- 659
Query: 271 YYINIRKSLVTGFF 284
+ ++S G+
Sbjct: 660 --VAKKRSGAKGYI 671
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 129 bits (323), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 58/104 (55%), Positives = 80/104 (76%), Gaps = 4/104 (3%)
Query: 90 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQEDP----QWCYDNFVNYRSLKSA 145
RP + KK ADDAK FAH DGDH+TLLNVYHAFK ++ +WC D+++NYRSL +A
Sbjct: 557 RPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAA 616
Query: 146 DNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQL 189
DN+R QL R+M+R+NL+ ++T++ S Y+ NIRK+L +GFFMQ+
Sbjct: 617 DNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQV 660
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/74 (45%), Positives = 55/74 (74%), Gaps = 3/74 (4%)
Query: 211 QWCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQD 270
+WC D+++NYRSL +ADN+R QL R+M+R+NL+ ++T++ S Y+ NIRK+L +GFFMQ
Sbjct: 601 KWCRDHYLNYRSLSAADNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQ- 659
Query: 271 YYINIRKSLVTGFF 284
+ ++S G+
Sbjct: 660 --VAKKRSGAKGYI 671
>pdb|3HL2|A Chain A, The Crystal Structure Of The Human Sepsecs-Trnasec Complex
pdb|3HL2|B Chain B, The Crystal Structure Of The Human Sepsecs-Trnasec Complex
pdb|3HL2|C Chain C, The Crystal Structure Of The Human Sepsecs-Trnasec Complex
pdb|3HL2|D Chain D, The Crystal Structure Of The Human Sepsecs-Trnasec Complex
Length = 501
Score = 117 bits (293), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 48/89 (53%), Positives = 69/89 (77%)
Query: 2 SLHPIVIETLMSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALC 61
P+VIE ++ GDELRTDL ++E+++ LG D I+C+ +TTSCFAPRV D L+ +A +C
Sbjct: 183 GFEPVVIENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCFAPRVPDRLEELAVIC 242
Query: 62 QRYNIPHVINNAYGLQSTRLMKLIQEAAR 90
Y+IPH++NNAYG+QS++ M LIQ+ AR
Sbjct: 243 ANYDIPHIVNNAYGVQSSKCMHLIQQGAR 271
>pdb|3BC8|A Chain A, Crystal Structure Of Mouse Selenocysteine Synthase
pdb|3BCA|A Chain A, Crystal Structure Of Mouse Selenocysteine Synthase, Sodium
Iodide Soak
pdb|3BCB|A Chain A, Crystal Structure Of Mouse Selenocysteine Synthase, Sodium
Phosphate Soak
Length = 450
Score = 117 bits (292), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 48/86 (55%), Positives = 70/86 (81%)
Query: 5 PIVIETLMSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
P+VIE ++ GDELRTDL ++E+++ LG ++I+C+ +TT+CFAPRV D L+ +A +C Y
Sbjct: 168 PVVIENVLEGDELRTDLKAVEAKIQELGPEHILCLHSTTACFAPRVPDRLEELAVICANY 227
Query: 65 NIPHVINNAYGLQSTRLMKLIQEAAR 90
+IPHV+NNAYGLQS++ M LIQ+ AR
Sbjct: 228 DIPHVVNNAYGLQSSKCMHLIQQGAR 253
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 97/175 (55%), Gaps = 12/175 (6%)
Query: 14 GDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVAD-NLDPIAALCQRYNIP-HVIN 71
G + T + ++E Q+ TLG+ + +LT R+A+ L+P+ LC+ + H+
Sbjct: 14 GSPMETLITAME-QLYTLGALDDEGLLTR---LGRRMAEFPLEPM--LCKMLIMSVHLGC 67
Query: 72 NAYGLQSTRLMKLIQEAARPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQEDPQW 131
+ L ++ + RP + + AD K +F +GDHLTLL VY+++K N+ W
Sbjct: 68 SEEMLTIVSMLSVQNVFYRPKDKQALADQKKAKFHQTEGDHLTLLAVYNSWKNNKFSNPW 127
Query: 132 CYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFF 186
CY+NF+ RSL+ A ++R+Q+ IMDR L S ++ + ++K++ +GFF
Sbjct: 128 CYENFIQARSLRRAQDIRKQMLGIMDRHKLDVVSCGKST----VRVQKAICSGFF 178
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 36/56 (64%), Gaps = 4/56 (7%)
Query: 212 WCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFF 267
WCY+NF+ RSL+ A ++R+Q+ IMDR L S ++ + ++K++ +GFF
Sbjct: 127 WCYENFIQARSLRRAQDIRKQMLGIMDRHKLDVVSCGKST----VRVQKAICSGFF 178
>pdb|2Z67|A Chain A, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
pdb|2Z67|B Chain B, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
pdb|2Z67|C Chain C, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
pdb|2Z67|D Chain D, Crystal Structure Of Archaeal O-phosphoseryl-trna(sec)
Selenium Transferase (sepsecs)
Length = 456
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 54/85 (63%), Gaps = 5/85 (5%)
Query: 7 VIETLMSGDELRTDLVSLESQMAT---LGSDNIVCVLTTTSCFAPRVADNLDPIAALCQR 63
++ET++ GD + + +E+ + LG N CVL+T + F PR +D++ IA +C+
Sbjct: 202 LVETVLDGDRVYVPVEDIENAIKKEIELG--NRPCVLSTLTFFPPRNSDDIVEIAKICEN 259
Query: 64 YNIPHVINNAYGLQSTRLMKLIQEA 88
Y+IPH+IN AY +Q+ ++ +++A
Sbjct: 260 YDIPHIINGAYAIQNNYYLEKLKKA 284
>pdb|1AX4|A Chain A, Tryptophanase From Proteus Vulgaris
pdb|1AX4|B Chain B, Tryptophanase From Proteus Vulgaris
pdb|1AX4|C Chain C, Tryptophanase From Proteus Vulgaris
pdb|1AX4|D Chain D, Tryptophanase From Proteus Vulgaris
Length = 467
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 20 DLVSLESQMATLGSDNIVCVLTTTSCFA----PRVADNLDPIAALCQRYNIPHVINNA 73
D+ L+ +A G+DNIV +++T +C + P NL + + +++ I V+++A
Sbjct: 168 DIKKLKENIAQHGADNIVAIVSTVTCNSAGGQPVSMSNLKEVYEIAKQHGIFVVMDSA 225
>pdb|3IF2|A Chain A, Crystal Structure Of Putative Amino-Acid Aminotransferase
(Yp_265399.1) From Psychrobacter Arcticum 273-4 At 2.50
A Resolution
pdb|3IF2|B Chain B, Crystal Structure Of Putative Amino-Acid Aminotransferase
(Yp_265399.1) From Psychrobacter Arcticum 273-4 At 2.50
A Resolution
Length = 444
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 5 PIVIETLMSGDE----LRTDLVSLESQMA-TLGSDNIVCVLTTTSCFAPRVADNLDP-IA 58
P + E G+E R D +LE+ A G +C T+ + D +A
Sbjct: 173 PHIDEVTHDGEEGFFKYRVDFEALENLPALKEGRIGAICCSRPTNPTGNVLTDEEXAHLA 232
Query: 59 ALCQRYNIPHVINNAYG 75
+ +RY+IP +I+NAYG
Sbjct: 233 EIAKRYDIPLIIDNAYG 249
>pdb|2GDQ|A Chain A, Crystal Structure Of Mandelate Racemase/muconate
Lactonizing Enzyme From Bacillus Subtilis At 1.8 A
Resolution
pdb|2GDQ|B Chain B, Crystal Structure Of Mandelate Racemase/muconate
Lactonizing Enzyme From Bacillus Subtilis At 1.8 A
Resolution
pdb|2GGE|A Chain A, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|B Chain B, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|C Chain C, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|D Chain D, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|E Chain E, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|F Chain F, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|G Chain G, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
pdb|2GGE|H Chain H, Crystal Structure Of Mandelate RacemaseMUCONATE
Lactonizing Enzyme From Bacillus Subtilis Complexed With
Mg++ At 1.8 A
Length = 382
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 11/83 (13%)
Query: 94 AKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQEDPQWCYDNFVNYRSLKSADNVRQQLS 153
A KAAD + G + + VY +F+ + PQW +S NV QL
Sbjct: 104 AAKAADCSVCEL--WGGRYREEIPVYASFQSYSDSPQWIS---------RSVSNVEAQLK 152
Query: 154 RIMDRFNLKRSSTEFTSKDYYIN 176
+ ++ +K T F +IN
Sbjct: 153 KGFEQIKVKIGGTSFKEDVRHIN 175
>pdb|1HX8|A Chain A, Crystal Structure Of N-Terminal Domain Of Drosophila
Ap180
pdb|1HX8|B Chain B, Crystal Structure Of N-Terminal Domain Of Drosophila
Ap180
Length = 299
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 12 MSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRYN--IPHV 69
M+G + L++ +A G VC TT C P+ +LD + N IPH+
Sbjct: 3 MAGQTINDRLLAARHSLAGQGLAKSVCKATTEECIGPK-KKHLDYLVHCANEPNVSIPHL 61
Query: 70 IN 71
N
Sbjct: 62 AN 63
>pdb|1PRY|A Chain A, Structure Determination Of Fibrillarin Homologue From
Hyperthermophilic Archaeon Pyrococcus Furiosus
(Pfu-65527)
Length = 227
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 46 FAPRVADNLDPIAALCQRYNIPHVINNA-----YGLQSTRLMKLIQEAARPNEAKKAADD 100
F+PRV L PI + +R NI ++ +A Y T++ + ++ A+P +AK D+
Sbjct: 106 FSPRVLRELVPI--VEERRNIIPILGDATKPEEYRALVTKVDVIFEDVAQPTQAKILIDN 163
Query: 101 AK 102
AK
Sbjct: 164 AK 165
>pdb|2NNW|B Chain B, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|D Chain D, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|3NMU|F Chain F, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|J Chain J, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVK|I Chain I, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|J Chain J, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVM|B Chain B, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 234
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 46 FAPRVADNLDPIAALCQRYNIPHVINNA-----YGLQSTRLMKLIQEAARPNEAKKAADD 100
F+PRV L PI + +R NI ++ +A Y T++ + ++ A+P +AK D+
Sbjct: 113 FSPRVLRELVPI--VEERRNIIPILGDATKPEEYRALVTKVDVIFEDVAQPTQAKILIDN 170
Query: 101 AK 102
AK
Sbjct: 171 AK 172
>pdb|3G7Q|A Chain A, Crystal Structure Of Valine-Pyruvate Aminotransferase Avta
(Np_462565.1) From Salmonella Typhimurium Lt2 At 1.80 A
Resolution
Length = 417
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 37 VCVLTTTSCFAPRVADN-LDPIAALCQRYNIPHVINNAYGLQSTRLMKLIQEAARP 91
+CV T+ + D L + L ++NIP VI+NAYG+ +I ARP
Sbjct: 184 ICVSRPTNPTGNVITDEELXKLDRLANQHNIPLVIDNAYGVP---FPGIIFSEARP 236
>pdb|2VKZ|G Chain G, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|2VKZ|H Chain H, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|2VKZ|I Chain I, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
Synthase Type I Multienzyme Complex
pdb|3HMJ|G Chain G, Saccharomyces Cerevisiae Fas Type I
pdb|3HMJ|H Chain H, Saccharomyces Cerevisiae Fas Type I
pdb|3HMJ|I Chain I, Saccharomyces Cerevisiae Fas Type I
pdb|2UV8|G Chain G, Crystal Structure Of Yeast Fatty Acid Synthase With
Stalled Acyl Carrier Protein At 3.1 Angstrom Resolution
pdb|2UV8|H Chain H, Crystal Structure Of Yeast Fatty Acid Synthase With
Stalled Acyl Carrier Protein At 3.1 Angstrom Resolution
pdb|2UV8|I Chain I, Crystal Structure Of Yeast Fatty Acid Synthase With
Stalled Acyl Carrier Protein At 3.1 Angstrom Resolution
Length = 2051
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 23/36 (63%)
Query: 171 KDYYINIRKSLVTGFFMQLIIVLAYPISSLPTVSLD 206
+ +++++RK++ FF+ + AYP +SLP L+
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
>pdb|2PFF|B Chain B, Structural Insights Of Yeast Fatty Acid Synthase
pdb|2PFF|E Chain E, Structural Insights Of Yeast Fatty Acid Synthase
pdb|2PFF|H Chain H, Structural Insights Of Yeast Fatty Acid Synthase
Length = 2006
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 23/36 (63%)
Query: 171 KDYYINIRKSLVTGFFMQLIIVLAYPISSLPTVSLD 206
+ +++++RK++ FF+ + AYP +SLP L+
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
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
0.324 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,703,048
Number of Sequences: 62578
Number of extensions: 279672
Number of successful extensions: 1114
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1098
Number of HSP's gapped (non-prelim): 22
length of query: 294
length of database: 14,973,337
effective HSP length: 98
effective length of query: 196
effective length of database: 8,840,693
effective search space: 1732775828
effective search space used: 1732775828
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (24.3 bits)