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= psy10094
(257 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DWR|B Chain B, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|A Chain A, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|C Chain C, Rna Ligase RtcbMN2+ COMPLEX
Length = 487
Score = 226 bits (576), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 117/259 (45%), Positives = 160/259 (61%), Gaps = 20/259 (7%)
Query: 1 MFDHIPVGVGSKGIIPMNARDLEEALEMGMDWSLREGYIWAEDKEHCEEYGRMLNADPSK 60
+F ++P GVGS+G I ++ +++ L G W++ GY W D E EE GRM ADP
Sbjct: 123 LFKNVPSGVGSQGRIKLHWTQIDDVLVDGAKWAVDNGYGWERDLERLEEGGRMEGADPEA 182
Query: 61 VSMRAKKRGLPQLGTLGAGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFG 120
VS RAK+RG PQLG+LG+GNH+ E+Q+VD+I+D A G+ + GQV VM+H+GSRG G
Sbjct: 183 VSQRAKQRGAPQLGSLGSGNHFLEVQVVDKIFDPEVAKAYGLFE-GQVVVMVHTGSRGLG 241
Query: 121 HQVATGKCEKITCMAYVFPDALVQMEKAMKRDNIETNDRQLACARINSKEGQDYLKSMAA 180
HQVA+ D L ME+A+++ I DR+L S+EGQ Y +M A
Sbjct: 242 HQVAS--------------DYLRIMERAIRKYRIPWPDRELVSVPFQSEEGQRYFSAMKA 287
Query: 181 AANFAWVNRSSMTFLCRQAFAKQFNTTPD-DLDMHVIYDVSHNIAKTEEHMVDGKQKTLL 239
AANFAW NR +T R++F + F P+ DL M ++YDV+HNI K EEH VDGK+ ++
Sbjct: 288 AANFAWANRQMITHWVRESFQEVFKQDPEGDLGMDIVYDVAHNIGKVEEHEVDGKRVKVI 347
Query: 240 VHRKVS----EPSHPGVSR 254
VHRK + P H V R
Sbjct: 348 VHRKGATRAFPPGHEAVPR 366
>pdb|1UC2|A Chain A, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|1UC2|B Chain B, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|4DWQ|A Chain A, Rtcb-GmpMN2+ COMPLEX
pdb|4DWQ|B Chain B, Rtcb-GmpMN2+ COMPLEX
Length = 481
Score = 226 bits (576), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 117/259 (45%), Positives = 160/259 (61%), Gaps = 20/259 (7%)
Query: 1 MFDHIPVGVGSKGIIPMNARDLEEALEMGMDWSLREGYIWAEDKEHCEEYGRMLNADPSK 60
+F ++P GVGS+G I ++ +++ L G W++ GY W D E EE GRM ADP
Sbjct: 123 LFKNVPSGVGSQGRIKLHWTQIDDVLVDGAKWAVDNGYGWERDLERLEEGGRMEGADPEA 182
Query: 61 VSMRAKKRGLPQLGTLGAGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFG 120
VS RAK+RG PQLG+LG+GNH+ E+Q+VD+I+D A G+ + GQV VM+H+GSRG G
Sbjct: 183 VSQRAKQRGAPQLGSLGSGNHFLEVQVVDKIFDPEVAKAYGLFE-GQVVVMVHTGSRGLG 241
Query: 121 HQVATGKCEKITCMAYVFPDALVQMEKAMKRDNIETNDRQLACARINSKEGQDYLKSMAA 180
HQVA+ D L ME+A+++ I DR+L S+EGQ Y +M A
Sbjct: 242 HQVAS--------------DYLRIMERAIRKYRIPWPDRELVSVPFQSEEGQRYFSAMKA 287
Query: 181 AANFAWVNRSSMTFLCRQAFAKQFNTTPD-DLDMHVIYDVSHNIAKTEEHMVDGKQKTLL 239
AANFAW NR +T R++F + F P+ DL M ++YDV+HNI K EEH VDGK+ ++
Sbjct: 288 AANFAWANRQMITHWVRESFQEVFKQDPEGDLGMDIVYDVAHNIGKVEEHEVDGKRVKVI 347
Query: 240 VHRKVS----EPSHPGVSR 254
VHRK + P H V R
Sbjct: 348 VHRKGATRAFPPGHEAVPR 366
>pdb|2EPG|A Chain A, Crystal Structure Of Ttha1785
pdb|2EPG|B Chain B, Crystal Structure Of Ttha1785
Length = 487
Score = 179 bits (453), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 115/257 (44%), Positives = 154/257 (59%), Gaps = 25/257 (9%)
Query: 1 MFDHIPVGVGS-KGIIPMNARDLEEALEMGMDWSLREGYIWAEDKEHCEEYGRMLNADPS 59
++ +P GVGS + + + R+L+E L+ G W ++ GY + ED E GR+ A+P
Sbjct: 134 LYRLVPSGVGSERRDVRFSKRELKEILKEGAGWLVKRGYGYPEDVRFIESQGRLPWANPD 193
Query: 60 KVSMRAKKRGLPQLGTLGAGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGF 119
KVS RA +RG PQ+GTLG+GNH+ E+Q VDE+YD+ AA G+ GQV V+IH+GSRG
Sbjct: 194 KVSERAFERGAPQIGTLGSGNHFLEVQYVDEVYDEEAALAFGLFK-GQVTVLIHTGSRGL 252
Query: 120 GHQVATGKCEKITCMAYVFPDALVQMEKAMKRDNIETNDRQLACARINSKEGQDYLKSMA 179
GHQV C YV + K R IE D+QLA A I S EGQDYL++ A
Sbjct: 253 GHQV---------CQDYV-----ERFLKVAPRYGIELVDKQLAAAPIKSPEGQDYLQAXA 298
Query: 180 AAANFAWVNRSSMTFLCRQAFAKQFNTTPDDLDMHVIYDVSHNIAKTEEHMVDGKQKTLL 239
AAANFA+ NR + R+AF K TP D + V+YD++HN AK EEH + + +L
Sbjct: 299 AAANFAFANRQLIAHFVREAFEK-VGFTPRDHGLRVLYDLAHNNAKFEEH----RGRRVL 353
Query: 240 VHRKVSE----PSHPGV 252
VHRK + P HP V
Sbjct: 354 VHRKGATRAFGPGHPEV 370
>pdb|2WET|A Chain A, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WET|B Chain B, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WET|C Chain C, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WET|D Chain D, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WEU|A Chain A, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
pdb|2WEU|B Chain B, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
pdb|2WEU|C Chain C, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
pdb|2WEU|D Chain D, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
Length = 511
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 15/119 (12%)
Query: 135 AYVFPDALVQMEKAMK---------RDNIETNDRQLACARINSKEGQDYLKSMAAAANFA 185
YV+ D + E+A + RD++E N Q+ R N + + ++ +A F
Sbjct: 292 GYVYSDEFISPEEAERELRSTVAPGRDDLEANHIQMRIGR-NERTWINNCVAVGLSAAFV 350
Query: 186 WVNRSSMTFLCRQAFAKQFNTTPDD-LDMHVIYDVSHNIAKTEEHMVDGKQKTLLVHRK 243
S+ F + A + P + D +I + +A HMVDG ++ L++H K
Sbjct: 351 EPLESTGIFFIQHAIEQLVKHFPGERWDPVLISAYNERMA----HMVDGVKEFLVLHYK 405
>pdb|2WES|A Chain A, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
pdb|2WES|B Chain B, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
pdb|2WES|C Chain C, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
pdb|2WES|D Chain D, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
Length = 511
Score = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 15/119 (12%)
Query: 135 AYVFPDALVQMEKAMK---------RDNIETNDRQLACARINSKEGQDYLKSMAAAANFA 185
YV+ D + E+A + RD++E N Q+ R N + + ++ +A F
Sbjct: 292 GYVYSDEFISPEEAERELRSTVAPGRDDLEANHIQMRIGR-NERTWINNCVAVGLSAAFV 350
Query: 186 WVNRSSMTFLCRQAFAKQFNTTPDD-LDMHVIYDVSHNIAKTEEHMVDGKQKTLLVHRK 243
S+ F + A + P + D +I + +A HMVDG ++ L++H K
Sbjct: 351 EPLESTGIFFIQHAIEQLVKHFPGERWDPVLISAYNERMA----HMVDGVKEFLVLHYK 405
>pdb|3LMC|A Chain A, Crystal Structure Of Zinc-Dependent Peptidase From
Methanocorpusculum Labreanum (Strain Z), Northeast
Structural Genomics Consortium Target Mur16
Length = 210
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 11/80 (13%)
Query: 71 PQLGTLGAGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFGHQVATGKCEK 130
P+LG H ++ +E Y K+A +D + ++ G+ GH G C+
Sbjct: 113 PKLGVAIVSPH----RLQNEFYGKYA------DDSALIDRIVKEGAHEIGHLFGLGHCDN 162
Query: 131 ITCMAYVFPDALVQMEKAMK 150
C+ Y P L ++++ K
Sbjct: 163 PGCIXYC-PRNLDELDRKRK 181
>pdb|3SWG|A Chain A, Aquifex Aeolicus Mura In Complex With Udp-N-Acetylmuramic
Acid And Covalent Adduct Of Pep With Cys124
Length = 425
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 38/149 (25%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 9 VGSKGIIPMNARDLEEAL----EMGMDWSLREGYIWAEDKEHCEEYGRMLNADPSKVSMR 64
VG G + AR +++ L E G D +REGY++ KE R ++ V++
Sbjct: 118 VGLPGGXSIGARPIDQHLKFFKEAGADVEVREGYVYVNLKEK-----RRVHFKFDLVTVT 172
Query: 65 AKKRGLPQLGTLGAGNHYAEIQIVDEIYDKW-AASKMG--IEDVGQVCVMIHSGS-RGFG 120
+ L L ++ + I + E+ D KMG ++ G+ + S + +GF
Sbjct: 173 GTENALLYLASVPEESILENIALEPEVMDLIEVLKKMGAHVKVEGRSAYVKGSENLKGFT 232
Query: 121 HQVATGKCEKITCMA-YVFPDALVQMEKA 148
H V + E T M V D + +E A
Sbjct: 233 HSVIPDRIEAGTFMVGAVLTDGEILLENA 261
>pdb|2YVW|A Chain A, Crystal Structure Of Udp-N-Acetylglucosamine
1-Carboxyvinyltransferase From Aquifex Aeolicus Vf5
Length = 425
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 38/149 (25%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 9 VGSKGIIPMNARDLEEAL----EMGMDWSLREGYIWAEDKEHCEEYGRMLNADPSKVSMR 64
VG G + AR +++ L E G D +REGY++ KE R ++ V++
Sbjct: 118 VGLPGGCSIGARPIDQHLKFFKEAGADVEVREGYVYVNLKEK-----RRVHFKFDLVTVT 172
Query: 65 AKKRGLPQLGTLGAGNHYAEIQIVDEIYDKW-AASKMG--IEDVGQVCVMIHSGS-RGFG 120
+ L L ++ + I + E+ D KMG ++ G+ + S + +GF
Sbjct: 173 GTENALLYLASVPEESILENIALEPEVMDLIEVLKKMGAHVKVEGRSAYVKGSENLKGFT 232
Query: 121 HQVATGKCEKITCMA-YVFPDALVQMEKA 148
H V + E T M V D + +E A
Sbjct: 233 HSVIPDRIEAGTFMVGAVLTDGEILLENA 261
>pdb|3TY7|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase Family Protein
From Staphylococcus Aureus
pdb|3TY7|B Chain B, Crystal Structure Of Aldehyde Dehydrogenase Family Protein
From Staphylococcus Aureus
Length = 478
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 21 DLEEALEMGMDWSL-REGYIWAEDKEHCEEYGRMLNADPSKVSMRAKKRGLP 71
DL+EA+++ D GY+ +DKE + R + A +++ +K LP
Sbjct: 395 DLDEAIQIANDTKYGLAGYVIGKDKETLHKVARSIEAGTVEINEAGRKPDLP 446
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 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,970,757
Number of Sequences: 62578
Number of extensions: 318724
Number of successful extensions: 712
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 700
Number of HSP's gapped (non-prelim): 10
length of query: 257
length of database: 14,973,337
effective HSP length: 97
effective length of query: 160
effective length of database: 8,903,271
effective search space: 1424523360
effective search space used: 1424523360
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: 50 (23.9 bits)