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= 007684
(593 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 = 694 bits (1790), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 337/497 (67%), Positives = 401/497 (80%), Gaps = 10/497 (2%)
Query: 90 MSNKSKKKARRESPEGVLRHKLDMCSKRGDVFEALRLYDDARSNGITLSQHHYNVLLYVC 149
+S K+KKKA ++SPE +L+ KLDMCSK+GDV EALRLYD+AR NG+ LSQ+HYNVLLYVC
Sbjct: 12 LSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVC 71
Query: 150 S-CKCGSESSENGDRENDSNLGLKRGFEIFQQMITDKVDPNEATFTSVARLAVAKEDPEM 208
S + +ESS N GL RGF+IF+QMI DKV PNEATFT+ ARLAVAK+DPEM
Sbjct: 72 SLAEAATESSPNP--------GLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEM 123
Query: 209 AFDLVKQMKSFGIPPKLRSYGPALFGFCKLGNTDKAYEVDAHMGESGVVPEEPELSALLK 268
AFD+VKQMK+FGI P+LRSYGPALFGFC+ G+ DKAYEVDAHM ES VVPEEPEL+ALLK
Sbjct: 124 AFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLK 183
Query: 269 LSVDAKKVDKVYEILHRLRTLVRQVSESTFKIIEDWFDSVDAAEIGVLNWDVSKVREXXX 328
+S+D K DKVY+ L RLR LVRQVS+STF +IE+WF S A + GV WDV K+R+
Sbjct: 184 VSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVATKTGVKKWDVKKIRDAVV 243
Query: 329 XXXXXXXXXXXXXXXKWRVERTQIDENGVCCSCNERLVCIDIDPRETENFASSLSNLACQ 388
KW V+RT++DENGVC C E+LVCIDI+P ETE FA+SL+ LAC+
Sbjct: 244 SGGGGWHGQGWLGTGKWNVKRTEMDENGVCKCCKEKLVCIDINPVETETFAASLTRLACE 303
Query: 389 REVRSDFNKFQEWLGRHGPFDAVIDGANVGLVNQHNFSFYQLNTVVNRLRQMSPSKRMPL 448
REV+++FN+FQEWL RHGPFDAVIDGAN+GLVNQ +FSF+QLN V R +Q+SPSKR+PL
Sbjct: 304 REVKANFNQFQEWLERHGPFDAVIDGANMGLVNQRSFSFFQLNNTVQRCQQISPSKRLPL 363
Query: 449 VILHKGRVSGGPAQIPKNKKLLDIWRDGGALYTTPPGSNDDWYWLYATVNCKSLLVTNDE 508
VILHK RV+GGPA PKN+ LL+ W++ GALY TPPGSNDDWYWLYA V+CK LLVTNDE
Sbjct: 364 VILHKSRVNGGPATYPKNRALLEKWKNAGALYATPPGSNDDWYWLYAAVSCKCLLVTNDE 423
Query: 509 MRDHLFQLLGTSFFPRWKEKHQIRLSVSR-DGLNLLMPPPYSIVIQESENGSWHVPVITG 567
MRDHLFQLLG SFFPRWKEKHQ+R+SV+R DGL L MPPPYSIVIQESE+G+WHVP+
Sbjct: 424 MRDHLFQLLGNSFFPRWKEKHQVRISVTREDGLKLNMPPPYSIVIQESEDGTWHVPMSVE 483
Query: 568 DDLEAPRQWLCATRARV 584
DDL+ RQWLCA R++
Sbjct: 484 DDLQTSRQWLCAKRSKT 500
>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 = 669 bits (1725), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 330/497 (66%), Positives = 388/497 (78%), Gaps = 10/497 (2%)
Query: 90 MSNKSKKKARRESPEGVLRHKLDMCSKRGDVFEALRLYDDARSNGITLSQHHYNVLLYVC 149
+S K+KKKA ++SPE +L+ KLD CSK+GDV EALRLYD+AR NG+ LSQ+HYNVLLYVC
Sbjct: 12 LSRKAKKKAIQQSPEALLKQKLDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVC 71
Query: 150 S-CKCGSESSENGDRENDSNLGLKRGFEIFQQMITDKVDPNEATFTSVARLAVAKEDPEM 208
S + +ESS N GL RGF+IF+Q I DKV PNEATFT+ ARLAVAK+DPE
Sbjct: 72 SLAEAATESSPNP--------GLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEX 123
Query: 209 AFDLVKQMKSFGIPPKLRSYGPALFGFCKLGNTDKAYEVDAHMGESGVVPEEPELSALLK 268
AFD VKQ K+FGI P+LRSYGPALFGFC+ G+ DKAYEVDAH ES VVPEEPEL+ALLK
Sbjct: 124 AFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHXVESEVVPEEPELAALLK 183
Query: 269 LSVDAKKVDKVYEILHRLRTLVRQVSESTFKIIEDWFDSVDAAEIGVLNWDVSKVREXXX 328
+S D K DKVY+ L RLR LVRQVS+STF IE+WF S A + GV WDV K+R+
Sbjct: 184 VSXDTKNADKVYKTLQRLRDLVRQVSKSTFDXIEEWFKSEVATKTGVKKWDVKKIRDAVV 243
Query: 329 XXXXXXXXXXXXXXXKWRVERTQIDENGVCCSCNERLVCIDIDPRETENFASSLSNLACQ 388
KW V+RT+ DENGVC C E+LVCIDI+P ETE FA+SL+ LAC+
Sbjct: 244 SGGGGWHGQGWLGTGKWNVKRTEXDENGVCKCCKEKLVCIDINPVETETFAASLTRLACE 303
Query: 389 REVRSDFNKFQEWLGRHGPFDAVIDGANVGLVNQHNFSFYQLNTVVNRLRQMSPSKRMPL 448
REV+++FN+FQEWL RHGPFDAVIDGAN GLVNQ +FSF+QLN V R +Q+SPSKR+PL
Sbjct: 304 REVKANFNQFQEWLERHGPFDAVIDGANXGLVNQRSFSFFQLNNTVQRCQQISPSKRLPL 363
Query: 449 VILHKGRVSGGPAQIPKNKKLLDIWRDGGALYTTPPGSNDDWYWLYATVNCKSLLVTNDE 508
VILHK RV+GGPA PKN+ LL+ W++ GALY TPPGSNDDWYWLYA V+CK LLVTNDE
Sbjct: 364 VILHKSRVNGGPATYPKNRALLEKWKNAGALYATPPGSNDDWYWLYAAVSCKCLLVTNDE 423
Query: 509 MRDHLFQLLGTSFFPRWKEKHQIRLSVSR-DGLNLLMPPPYSIVIQESENGSWHVPVITG 567
RDHLFQLLG SFFPRWKEKHQ+R+SV+R DGL L PPPYSIVIQESE+G+WHVP
Sbjct: 424 XRDHLFQLLGNSFFPRWKEKHQVRISVTREDGLKLNXPPPYSIVIQESEDGTWHVPXSVE 483
Query: 568 DDLEAPRQWLCATRARV 584
DDL+ RQWLCA R++
Sbjct: 484 DDLQTSRQWLCAKRSKT 500
>pdb|2QGY|A Chain A, Crystal Structure Of An Enolase From The Environmental
Genome Shotgun Sequencing Of The Sargasso Sea
pdb|2QGY|B Chain B, Crystal Structure Of An Enolase From The Environmental
Genome Shotgun Sequencing Of The Sargasso Sea
Length = 391
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 114 CSKRGDVFEALRLYDDARSNGITLSQHHYN-------VLLYVCSCKCGSESSE 159
S G + + + + ++A +NGI +S H +N +L+VCS SE +E
Sbjct: 276 ISGMGGLIDIIEISNEASNNGIFISPHCWNSMSVSASAMLHVCSSIPNSEKAE 328
>pdb|2F1K|A Chain A, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
pdb|2F1K|B Chain B, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
pdb|2F1K|C Chain C, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
pdb|2F1K|D Chain D, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
Length = 279
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 485 GSNDDWYWLYATVNCKSLLVTNDEMRDHLFQLLGTSFFPRWKEKHQI 531
G N + + AT N ++LL + + R HL QL+ +W E H++
Sbjct: 220 GGNPELGTMMATYNQRALLKSLQDYRQHLDQLITLISNQQWPELHRL 266
>pdb|3DUG|A Chain A, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|B Chain B, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|C Chain C, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|D Chain D, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|E Chain E, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|F Chain F, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|G Chain G, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|H Chain H, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
Length = 408
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 34/65 (52%)
Query: 105 GVLRHKLDMCSKRGDVFEALRLYDDARSNGITLSQHHYNVLLYVCSCKCGSESSENGDRE 164
GV+ D+ +K+ + E + D+A ++G+ ++ H + ++ + K G +S E+
Sbjct: 190 GVMSRNTDVNAKQFTLEEMKAIVDEAHNHGMKVAAHAHGLIGIKAAIKAGVDSVEHASFI 249
Query: 165 NDSNL 169
+D +
Sbjct: 250 DDETI 254
>pdb|3BE7|A Chain A, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|B Chain B, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|C Chain C, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|D Chain D, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|E Chain E, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|F Chain F, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|G Chain G, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|H Chain H, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
Length = 408
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 34/65 (52%)
Query: 105 GVLRHKLDMCSKRGDVFEALRLYDDARSNGITLSQHHYNVLLYVCSCKCGSESSENGDRE 164
GV+ D+ +K+ + E + D+A ++G+ ++ H + ++ + K G +S E+
Sbjct: 190 GVMSRNTDVNAKQFTLEEMKAIVDEAHNHGMKVAAHAHGLIGIKAAIKAGVDSVEHASFI 249
Query: 165 NDSNL 169
+D +
Sbjct: 250 DDETI 254
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
0.319 0.134 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,646,478
Number of Sequences: 62578
Number of extensions: 720776
Number of successful extensions: 1555
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1538
Number of HSP's gapped (non-prelim): 11
length of query: 593
length of database: 14,973,337
effective HSP length: 104
effective length of query: 489
effective length of database: 8,465,225
effective search space: 4139495025
effective search space used: 4139495025
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)