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= psy2376
(896 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TKA|A Chain A, Crystal Structure And Solution Saxs Of Methyltransferase
Rsmh From E.Coli
Length = 347
Score = 278 bits (711), Expect = 9e-75, Method: Compositional matrix adjust.
Identities = 135/262 (51%), Positives = 187/262 (71%), Gaps = 4/262 (1%)
Query: 390 LFLNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNK 449
+ L+EA+N LNI R +GIYID TFG+GGHS IL +LG++GRL+AID+D +++++
Sbjct: 44 VLLDEAVNGLNI---RPDGIYIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKT 100
Query: 450 ITDSRFSIIHNCFTEL-DIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDM 508
I D RFSIIH F+ L + + ++ I KIDGIL DLG+SS Q+++ RGFSF+ DGPLDM
Sbjct: 101 IDDPRFSIIHGPFSALGEYVAERDLIGKIDGILLDLGVSSPQLDDAERGFSFMRDGPLDM 160
Query: 509 RMDITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHYRSITPITRTKQLVEI 568
RMD TRG SA++WL A E +I V++ YGEERFAK+IA+ IV P+TRTK+L E+
Sbjct: 161 RMDPTRGQSAAEWLQTAEEADIAWVLKTYGEERFAKRIARAIVERNREQPMTRTKELAEV 220
Query: 569 ILKSIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLED 628
+ + ++K+PATRTFQA+RI++N EL+ + ALK L GR+ +ISFHSLED
Sbjct: 221 VAAATPVKDKFKHPATRTFQAVRIWVNSELEEIEQALKSSLNVLAPGGRLSIISFHSLED 280
Query: 629 RIVKNFINFNTKIPHIDRRLPI 650
RIVK F+ N++ P + LP+
Sbjct: 281 RIVKRFMRENSRGPQVPAGLPM 302
>pdb|1NMP|A Chain A, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|B Chain B, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|C Chain C, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|D Chain D, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|E Chain E, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|F Chain F, Structural Genomics, Ybgi Protein, Unknown Function
Length = 247
Score = 199 bits (506), Expect = 5e-51, Method: Composition-based stats.
Identities = 98/219 (44%), Positives = 136/219 (62%), Gaps = 11/219 (5%)
Query: 669 KKLNIKKYEDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGE 728
+KLN DY PNGLQVEG+ + IVTGVTAS L+ AV + ADA++VHHGYFWKGE
Sbjct: 12 EKLNSAAISDYAPNGLQVEGKETVQKIVTGVTASQALLDEAVRLGADAVIVHHGYFWKGE 71
Query: 729 NSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSXXXXXX 788
+ I G+K+ RL+ L+ N INLY +HLPLD HP+LGNNAQLA +L +
Sbjct: 72 SPVIRGMKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAALLGITVMGEIE------ 125
Query: 789 XXXXXXLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYE-IGWCTGAAQNLLTD 847
+ + +L I ++G+KP+ GD ++ + + WCTG Q+ +
Sbjct: 126 ----PLVPWGELTMPVPGLELASWIEARLGRKPLWCGDTGPEVVQRVAWCTGGGQSFIDS 181
Query: 848 AINEGVTAYISGEISESTVYISRESGVAYFAAGHHATER 886
A GV A+I+GE+SE T++ +RE G+ ++AAGHHATER
Sbjct: 182 AARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATER 220
>pdb|1NMO|A Chain A, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|B Chain B, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|C Chain C, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|D Chain D, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|E Chain E, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|F Chain F, Structural Genomics, Protein Ybgi, Unknown Function
Length = 247
Score = 198 bits (504), Expect = 9e-51, Method: Composition-based stats.
Identities = 98/219 (44%), Positives = 135/219 (61%), Gaps = 11/219 (5%)
Query: 669 KKLNIKKYEDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGE 728
+KLN DY PNGLQVEG+ + IVTGVTAS L+ AV + ADA++VHHGYFWKGE
Sbjct: 12 EKLNSAAISDYAPNGLQVEGKETVQKIVTGVTASQALLDEAVRLGADAVIVHHGYFWKGE 71
Query: 729 NSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSXXXXXX 788
+ I G K+ RL+ L+ N INLY +HLPLD HP+LGNNAQLA +L +
Sbjct: 72 SPVIRGXKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAALLGITVXGEIE------ 125
Query: 789 XXXXXXLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYE-IGWCTGAAQNLLTD 847
+ + +L I ++G+KP+ GD ++ + + WCTG Q+ +
Sbjct: 126 ----PLVPWGELTXPVPGLELASWIEARLGRKPLWCGDTGPEVVQRVAWCTGGGQSFIDS 181
Query: 848 AINEGVTAYISGEISESTVYISRESGVAYFAAGHHATER 886
A GV A+I+GE+SE T++ +RE G+ ++AAGHHATER
Sbjct: 182 AARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATER 220
>pdb|1M6Y|A Chain A, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sah
pdb|1M6Y|B Chain B, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sah
pdb|1N2X|A Chain A, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sam
pdb|1N2X|B Chain B, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sam
Length = 301
Score = 173 bits (438), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 111/257 (43%), Positives = 154/257 (59%), Gaps = 14/257 (5%)
Query: 392 LNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGN--- 448
+ E I +L E+E+I +D T G+GGHS ILE R+I ID D+E + +
Sbjct: 15 VREVIEFLKPEDEKI---ILDCTVGEGGHSRAILEHC-PGCRIIGIDVDSEVLRIAEEKL 70
Query: 449 KITDSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDM 508
K R S+ + E D +LK I+K+DGIL DLG+S+ Q+ E RGF+F + PLD
Sbjct: 71 KEFSDRVSLFKVSYREADFLLKTLGIEKVDGILXDLGVSTYQLKGENRGFTFEREEPLDX 130
Query: 509 RMDITRGISASKWLANATEFNIKKVIQDYGEE-RFAKKIAKEIVHYRSITPITRTKQLVE 567
R D+ ++A K L E + ++I +YGEE RFA++IA++IV R P+ T LV+
Sbjct: 131 RXDLESEVTAQKVLNELPEEELARIIFEYGEEKRFARRIARKIVENR---PLNTTLDLVK 187
Query: 568 II---LKSIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFH 624
+ L S +R ++ AT+TFQAIRIY+N+EL+NL LK LN GRIVVISFH
Sbjct: 188 AVREALPSYEIRRRKRHFATKTFQAIRIYVNRELENLKEFLKKAEDLLNPGGRIVVISFH 247
Query: 625 SLEDRIVKNFINFNTKI 641
SLEDRIVK + K+
Sbjct: 248 SLEDRIVKETFRNSKKL 264
>pdb|1WG8|A Chain A, Crystal Structure Of A Predicted S-Adenosylmethionine-
Dependent Methyltransferase Tt1512 From Thermus
Thermophilus Hb8.
pdb|1WG8|B Chain B, Crystal Structure Of A Predicted S-Adenosylmethionine-
Dependent Methyltransferase Tt1512 From Thermus
Thermophilus Hb8
Length = 285
Score = 170 bits (431), Expect = 3e-42, Method: Composition-based stats.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 8/246 (3%)
Query: 390 LFLNEAINWLNIENERINGIYIDATFGQGGHSCKILERLGKKGRLIAIDKDTESVSLGNK 449
+ EA++ L + R G+Y+DAT G GH+ ILER GR+I +D+D E+V+
Sbjct: 9 VLYQEALDLLAV---RPGGVYVDATLGGAGHARGILER---GGRVIGLDQDPEAVARAKG 62
Query: 450 ITDSRFSIIHNCFTELDIILKKYNIKKIDGILFDLGISSNQINNELRGFSFLLDGPLDMR 509
+ +++ F L L ++++DGIL DLG+SS +++ RGFS+ +GPLDMR
Sbjct: 63 LHLPGLTVVQGNFRHLKRHLAALGVERVDGILADLGVSSFHLDDPSRGFSYQKEGPLDMR 122
Query: 510 MDITRGISASKWLANATEFNIKKVIQDYGEERFAKKIAKEIVHYRSITPITRTKQLVEII 569
M + G +A + + + +++++ GEE A +IA+ IV R PI T QL EI+
Sbjct: 123 MGL-EGPTAKEVVNRLPLEALARLLRELGEEPQAYRIARAIVAAREKAPIETTTQLAEIV 181
Query: 570 LKSIRGNKRYKNPATRTFQAIRIYINQELKNLSIALKIGFKKLNIKGRIVVISFHSLEDR 629
K++ G +R +PA +TFQA+RIY+N EL L L+ + L GR+VVI+FHSLEDR
Sbjct: 182 RKAV-GFRRAGHPARKTFQALRIYVNDELNALKEFLEQAAEVLAPGGRLVVIAFHSLEDR 240
Query: 630 IVKNFI 635
+VK F+
Sbjct: 241 VVKRFL 246
>pdb|2YYB|A Chain A, Crystal Structure Of Ttha1606 From Thermus Thermophilus
Hb8
pdb|2YYB|B Chain B, Crystal Structure Of Ttha1606 From Thermus Thermophilus
Hb8
Length = 242
Score = 86.3 bits (212), Expect = 7e-17, Method: Composition-based stats.
Identities = 61/211 (28%), Positives = 97/211 (45%), Gaps = 15/211 (7%)
Query: 677 EDYCPNGLQVEGRSNINVIVTGVTASLDLIKTAVDMNADAILVHHGYFWKGENSNIVGIK 736
+D NGLQVEG+ + + V A + + A++ D ++VHHG FW G+ IVG
Sbjct: 21 QDPSLNGLQVEGKRTVRKVGAAVDAGEAIFRKALEEEVDFLIVHHGLFW-GKPFPIVGHH 79
Query: 737 KKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSXXXXXXXXXXXXLK 796
K+RLE L INLYA HLPLD H ++GNN LA+ L +
Sbjct: 80 KRRLETLFQGGINLYAAHLPLDAHEEVGNNFVLARELGLVDLTPWDVGV----------- 128
Query: 797 RYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIYEIGWCTGAAQNLLTDAINEGVTAY 856
+ F + + + + + G +P+V + + +G+ LL +
Sbjct: 129 KGRFPQPTPLLQVADRLGQLTGMQPLVHQGGLDHVETVILVSGSGTGLLPKV---DADLF 185
Query: 857 ISGEISESTVYISRESGVAYFAAGHHATERY 887
++GE S + + E G+ AGH+ TE +
Sbjct: 186 VTGEPKHSVFHETFERGLNVIYAGHYDTETF 216
>pdb|3LNL|A Chain A, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
pdb|3LNL|B Chain B, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
Length = 370
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 5/85 (5%)
Query: 693 NVIVTGVTASLD----LIKTAVDMNADAILVHHGYFWKGENSNIVGIKKKRLEQLIINKI 748
+V VTGV +LD ++ A++ + I+ HH +KG S + +LI + I
Sbjct: 37 DVEVTGVLTALDCTLEVVNEAIEKGYNTIISHHPLIFKGVTSLKANGYGLIIRKLIQHDI 96
Query: 749 NLYAYHLPLDMHPKLGNNAQLAKIL 773
NL A H LD++P G N LAK++
Sbjct: 97 NLIAMHTNLDVNPH-GVNMMLAKVM 120
>pdb|2NYD|A Chain A, Crystal Structure Of Staphylococcus Aureus Hypothetical
Protein Sa1388
pdb|2NYD|B Chain B, Crystal Structure Of Staphylococcus Aureus Hypothetical
Protein Sa1388
Length = 370
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 5/85 (5%)
Query: 693 NVIVTGVTASLD----LIKTAVDMNADAILVHHGYFWKGENSNIVGIKKKRLEQLIINKI 748
+V VTGV +LD ++ A++ + I+ HH +KG S + +LI + I
Sbjct: 37 DVEVTGVLTALDCTLEVVNEAIEKGYNTIISHHPLIFKGVTSLKANGYGLIIRKLIQHDI 96
Query: 749 NLYAYHLPLDMHPKLGNNAQLAKIL 773
NL A H LD++P G N LAK++
Sbjct: 97 NLIAMHTNLDVNP-YGVNMMLAKVM 120
>pdb|2FYW|A Chain A, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
pdb|2FYW|B Chain B, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
pdb|2FYW|C Chain C, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
Length = 267
Score = 38.1 bits (87), Expect = 0.023, Method: Composition-based stats.
Identities = 49/226 (21%), Positives = 84/226 (37%), Gaps = 22/226 (9%)
Query: 673 IKKYEDYCPNGLQVEGRS---NINVIVTG---VTASLDL----IKTAVDMNADAILVHHG 722
I+ YE +CP EG S I + G V +LD+ + A++ D I+V H
Sbjct: 9 IQAYEAFCPQEFSXEGDSRGLQIGTLDKGIQRVXVALDIREETVAEAIEKGVDLIIVKHA 68
Query: 723 YFWKGENSNIVGIKKKRLE-QLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRF 781
++ + + ++ LI + I +Y H +D+ G N + L T
Sbjct: 69 PIFRPIKDLLASRPQNQIYIDLIKHDIAVYVSHTNIDIVEN-GLNDWFCQXLGIEETTYL 127
Query: 782 SXXXXXXXXXXXXLKRYNFKKIITIKDLFHHITRKIGKKPIVI-----GDLNKKIYEIGW 836
+ R + T +L + + + DL K I +
Sbjct: 128 QETGPERG-----IGRIGNIQPQTFWELAQQVKQVFDLDSLRXVHYQEDDLQKPISRVAI 182
Query: 837 CTGAAQNLLTDAINEGVTAYISGEISESTVYISRESGVAYFAAGHH 882
C G+ Q+ DA+ +G YI+G+I T G+ GH+
Sbjct: 183 CGGSGQSFYKDALAKGADVYITGDIYYHTAQDXLSDGLLALDPGHY 228
>pdb|3EEY|A Chain A, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|B Chain B, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|C Chain C, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|D Chain D, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|E Chain E, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|F Chain F, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|G Chain G, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|H Chain H, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|I Chain I, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
pdb|3EEY|J Chain J, Crystal Structure Of Putative Rrna-Methylase From
Clostridium Thermocellum
Length = 197
Score = 30.4 bits (67), Expect = 4.9, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 9/80 (11%)
Query: 411 IDATFGQGGHSCKILERLGKKGRLIAID-KDTESVSLGNKITD----SRFSIIHNCFTEL 465
+DAT G G + + +G+ GR+ D +D + K+TD R ++I + +
Sbjct: 27 VDATCGNGNDTAFLASLVGENGRVFGFDIQDKAIANTTKKLTDLNLIDRVTLIKDGHQNM 86
Query: 466 DIILKKYNIKKIDGILFDLG 485
D KY + ++F+LG
Sbjct: 87 D----KYIDCPVKAVMFNLG 102
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
0.327 0.142 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,925,760
Number of Sequences: 62578
Number of extensions: 931124
Number of successful extensions: 2518
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2496
Number of HSP's gapped (non-prelim): 19
length of query: 896
length of database: 14,973,337
effective HSP length: 108
effective length of query: 788
effective length of database: 8,214,913
effective search space: 6473351444
effective search space used: 6473351444
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (26.2 bits)