RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15214
(265 letters)
>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A
{Escherichia coli} SCOP: a.4.5.1 b.34.1.1 d.104.1.2 PDB:
1bib_A* 1hxd_A* 2ewn_A*
Length = 321
Score = 202 bits (515), Expect = 4e-64
Identities = 73/238 (30%), Positives = 109/238 (45%), Gaps = 8/238 (3%)
Query: 33 STNSTNSNLLSIANTGLLFHPTFLATKIQTAGRGRAGRIWYSEPEITLTFSLAWKFKISL 92
+STN LL + Q AGRGR GR W+S L S+ W+ +
Sbjct: 86 VIDSTNQYLLDRIGELK--SGDACIAEYQQAGRGRRGRKWFSPFGANLYLSMFWRLEQGP 143
Query: 93 KYLTSLPLVISIALSIALKKFG-QKVQLKWPNDLLLNGNKFCGILIDTCIEKKNNNWAII 151
L LVI I ++ L+K G KV++KWPNDL L K GIL++ + + +I
Sbjct: 144 AAAIGLSLVIGIVMAEVLRKLGADKVRVKWPNDLYLQDRKLAGILVELTGKTGDAAQIVI 203
Query: 152 GIGLNLGLPRILSKKINIGNISELLNMEHE----KLLAVFICYLIDSLKLFEHYGFSIFM 207
G G+N+ + R+ +N G L L A+ I L +L+LFE G + ++
Sbjct: 204 GAGINMAMRRVEESVVNQG-WITLQEAGINLDRNTLAAMLIRELRAALELFEQEGLAPYL 262
Query: 208 KYWNFNHAYTNKTVDILKLNKIQKGIVIGINKNGCLLLNTKFGKITISSGDVSLRLKK 265
W + N+ V ++ +K GI GI+K G LLL G++SLR +
Sbjct: 263 SRWEKLDNFINRPVKLIIGDKEIFGISRGIDKQGALLLEQDGIIKPWMGGEISLRSAE 320
>3rkx_A Biotin-[acetyl-COA-carboxylase] ligase; biotin protein ligase, 3
domains, enzyme DNA binding, biotin coupling domains;
2.10A {Staphylococcus aureus} PDB: 3rir_A* 3rkw_A
3rky_A* 3v7c_A* 3v7s_A* 4dq2_A*
Length = 323
Score = 190 bits (485), Expect = 1e-59
Identities = 53/236 (22%), Positives = 96/236 (40%), Gaps = 9/236 (3%)
Query: 33 STNSTNSNLLSIANTGLLFHPTFLATKIQTAGRGRAGRIWYSEPEITLTFSLAWKFKISL 92
S +ST F+ + QT GRGR R W S L S+ + ++
Sbjct: 90 SIDSTQLAAKKSLVGNQ--SSFFILSDEQTKGRGRFNRHWSSSKGQGLWMSVVLRPNVAF 147
Query: 93 KYLTSLPLVISIALSIALKKF-GQKVQLKWPNDLLLNGNKFCGILIDTCIEKKNNNWAII 151
++ L I++ + A++ F +V++KWPND+ ++ K CG L + I
Sbjct: 148 SMISKFNLFIALGIRDAIQHFSQDEVKVKWPNDIYIDNGKVCGFLTEMVANNDGIEAIIC 207
Query: 152 GIGLNLGLPR-ILSKKIN--IGNISELLNMEH--EKLLAVFICYLIDSLKLFEHYGFSIF 206
GIG+NL + I +I + + L + + F FS
Sbjct: 208 GIGINLTQQLENFDESIRHRATSIQLHDKNKLDRYQFLERLLQEIEKRYNQFLTLPFSEI 267
Query: 207 MKYWNFNHAYTNKTVDILKLNKIQKGIVIGINKNGCLLLNTKFGKI-TISSGDVSL 261
+ +N N+T+ + +K KG I ++ +G L++ + G+ + S D+
Sbjct: 268 REEYNAASNIWNRTLLFTENDKQFKGQAIDLDYDGYLIVRDEAGESHRLISADIDF 323
>2eay_A Biotin [acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer,
X-RAY diffraction, structural genomics, NPPSFA; 1.95A
{Aquifex aeolicus} PDB: 3efs_A* 3fjp_A 3efr_A*
Length = 233
Score = 178 bits (453), Expect = 1e-55
Identities = 67/234 (28%), Positives = 107/234 (45%), Gaps = 16/234 (6%)
Query: 33 STNSTNSNLLSIANTGLLFHPTFLATKIQTAGRGRAGRIWYSEPEITLTFSLAWKFKISL 92
+ST L + + T L QT GRGR GR W S E L FS K
Sbjct: 10 EVDSTQERLKEWNVS----YGTALVADRQTKGRGRLGRKWLS-QEGGLYFSFLLNPK-EF 63
Query: 93 KYLTSLPLVISIALSIALKKF-GQKVQLKWPNDLLLNGNKFCGILIDTCIEKKNNNWAII 151
+ L LPLV+ +++S AL++ LKWPND+ K G+L + + I+
Sbjct: 64 ENLLQLPLVLGLSVSEALEEITEIPFSLKWPNDVYFQEKKVSGVLCELSKD-----KLIV 118
Query: 152 GIGLNLGLPRILSKKINI-GNISELLNMEH--EKLLAVFICYLIDSLKLFEHYGFSIFMK 208
GIG+N+ I + + + E+ + +++L + + ++LK F+ F F
Sbjct: 119 GIGINVNQREIPEEIKDRATTLYEITGKDWDRKEVLLKVLKRISENLKKFKEKSFKEFKG 178
Query: 209 YWNFNHAYTNKTVDILKLNKIQKGIVIGINKNGCLLLNTKFGKITISSGDVSLR 262
Y + V +L KI G ++G+++ G L+ T+ G I SG+ SLR
Sbjct: 179 KIESKMLYLGEEVKLLGEGKIT-GKLVGLSEKGGALILTEEGIKEILSGEFSLR 231
>3rux_A BIRA bifunctional protein; biotin-protein ligase, ligase-ligase
inhibitor complex; HET: BS5; 1.70A {Mycobacterium
tuberculosis} PDB: 3l1a_A 3l2z_A 2cgh_A
Length = 270
Score = 174 bits (443), Expect = 8e-54
Identities = 56/243 (23%), Positives = 98/243 (40%), Gaps = 24/243 (9%)
Query: 33 STNSTNSNLLSIANTGLLFHPTFLATKIQTAGRGRAGRIWYSEPEITLTFSLAWKFKIS- 91
T STN++LL+ A +G L + QTAGRGR GR W + + S+ +
Sbjct: 39 QTGSTNADLLARAASGADIDGVVLIAEHQTAGRGRHGRGWAATARAQIILSVGVRVVDVP 98
Query: 92 LKYLTSLPLVISIALSIALKKF----GQKVQLKWPNDLLLNGNKFCGILIDTCIEKKNNN 147
++ L L +A+ ++ + LKWPND+L G K GIL +
Sbjct: 99 VQAWGWLSLAAGLAVLDSVAPLIAVPPAETGLKWPNDVLARGGKLAGILAEVAQP----- 153
Query: 148 WAIIGIGLNLGLPRILSKKINIGNISELLNMEH------EKLLAVFICYLIDSLKLFEHY 201
+ ++G+GLN+ ++++ S L ++ + + L + + +
Sbjct: 154 FVVLGVGLNVTQAP---EEVDPDATS--LLDLGVAAPDRNRIASRLLRELEARIIQWRN- 207
Query: 202 GFSIFMKYWNFNHAYTNKTVDI-LKLNKIQKGIVIGINKNGCLLLNTKFGKITISSGDV- 259
+ V + L + GI I+ G L L+ + +S+GDV
Sbjct: 208 ANPQLAADYRARSLTIGSRVRVELPGGQDVVGIARDIDDQGRLCLDVGGRTVVVSAGDVV 267
Query: 260 SLR 262
LR
Sbjct: 268 HLR 270
>2dxu_A Biotin--[acetyl-COA-carboxylase] ligase; biotin biosynthesis,
dimer, X-RAY diffraction, structural genomics, NPPSFA;
HET: BT5; 1.28A {Pyrococcus horikoshii} PDB: 2dzc_A
2ejg_A* 2e3y_A* 2e41_A* 2e64_A 2ejf_A* 2zgw_A* 1wqw_A*
1wpy_A* 1wq7_A 1wnl_A* 1x01_A* 2dkg_A* 2dth_A* 2dti_A*
2dto_A* 2fyk_A* 2djz_A* 2hni_A 2e10_A ...
Length = 235
Score = 170 bits (434), Expect = 8e-53
Identities = 58/236 (24%), Positives = 93/236 (39%), Gaps = 24/236 (10%)
Query: 33 STNSTNSNLLSIANTGLLFHPTFLATKIQTAGRGRAGRIWYSEPEITLTFSLAWKFKISL 92
STN + T + QT G G R W S PE L S+ K+
Sbjct: 18 EITSTNEFAKTSYLE----EGTVIVADKQTMGHGALNRKWES-PEGGLWLSIVLSPKVPQ 72
Query: 93 KYLTSLPLVISIALSIALKKFGQKVQLKWPNDLLLNGNKFCGILIDTCIEKKNNNWAIIG 152
K L + + ++ + LK+F ++KWPND+L+N K G+L++ + ++G
Sbjct: 73 KDLPKIVFLGAVGVVETLKEFSIDGRIKWPNDVLVNYKKIAGVLVEGKGD-----KIVLG 127
Query: 153 IGLNL--GLPRILSKKINIGNISELLNMEH--EKLLAVFICYLIDSLKLFEHYGFSIFMK 208
IGLN+ +P ++ L E + I L F I
Sbjct: 128 IGLNVNNKVPNG------ATSMKLELGSEVPLLSVFRSLITNLDRLYLNFLKNPMDILNL 181
Query: 209 YWNFNHAYTNKTVDILKLNKIQKGIVIGINKNGCLLLNTKFGKI-TISSGDVSLRL 263
++ V IL + +GI I+ G L++ G++ + GDVSLR
Sbjct: 182 VR--DNMILGVRVKILG-DGSFEGIAEDIDDFGRLIIRLDSGEVKKVIYGDVSLRF 234
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY
diffraction, structural genomics, NPPSFA; HET: BTN;
2.00A {Methanocaldococcus jannaschii}
Length = 237
Score = 155 bits (395), Expect = 4e-47
Identities = 63/248 (25%), Positives = 110/248 (44%), Gaps = 22/248 (8%)
Query: 26 IDIRTILSTNSTNSNLLSIANTGLLFHPTFLATKIQTAGRGRAGRIWYSEPEITLTFSLA 85
++I + +STN +A G + Q G+GR GR+WYS E L FS+
Sbjct: 1 MEIIHLSEIDSTNDYAKELAKEGK--RNFIVLADKQNNGKGRWGRVWYS-DEGGLYFSMV 57
Query: 86 WKFKISLKYLTSLPLVISIALSIALKKF-GQKVQLKWPNDLLL----NGNKFCGILIDTC 140
K+ + L++ I + LK + +++ LK+PND+++ N K GIL +
Sbjct: 58 LDSKLY--NPKVINLLVPICIIEVLKNYVDKELGLKFPNDIMVKVNDNYKKLGGILTELT 115
Query: 141 IEKKNNNWAIIGIGLNLGLPRILSKKINIGNISELLNMEH--EKLLAVFICYLIDSLKLF 198
+ + IIGIG+N+ + ++ E+ E ++L+ F+ L+
Sbjct: 116 DD-----YMIIGIGINVNNQIRNEIREIAISLKEITGKELDKVEILSNFLKTFESYLEKL 170
Query: 199 EHYGFSIF--MKYWNFNHAYTNKTVDILKLN-KIQKGIVIGINKNGCLLLNTKFGKITIS 255
++ + +K + K V IL N +I G V I+ +G +L T+ G I
Sbjct: 171 KNKEIDDYEILKKYKKYSITIGKQVKILLSNNEIITGKVYDIDFDGIVLG-TEKGIERIP 229
Query: 256 SGDV-SLR 262
SG +R
Sbjct: 230 SGICIHVR 237
>3bfm_A Biotin protein ligase-like protein of unknown FUN; structural
genomics, joint center for structural genomics, J
protein structure initiative; HET: 2PE; 1.70A
{Silicibacter SP}
Length = 235
Score = 132 bits (332), Expect = 8e-38
Identities = 32/212 (15%), Positives = 66/212 (31%), Gaps = 12/212 (5%)
Query: 56 LATKIQTAGRGR-AGRIWYSEPEITLTFSLAWKFKISLKYLTSLPLVISIALSIALKKFG 114
Q A G AG + Y L +L ++ L ++ V + AL
Sbjct: 24 FDLACQKAELGVDAGLVVYELGTDVLRAALVLAPEVPLAKAMAMLPVCGVGFQNALGALA 83
Query: 115 QK---VQLKWPNDLLLNGNKFCGILIDTCI--EKKNNNWAIIGIGLNLGLPRILSKKINI 169
V L W L +NG + + I +W ++G+ L L + +
Sbjct: 84 PPEVAVHLDWNGALRINGARCGRLRIAASTDDPDTQPDWLVVGLDLPLWPEGDGGETPDE 143
Query: 170 GNISELLNMEH--EKLLAVFICYLIDSLKLFEHYGFSIFMKYWNFNHAYTNKTVDILKLN 227
+ + +LL + + + + ++ W +
Sbjct: 144 TALYAEGCADVAAPRLLESWARHCLHWINRWDEGELETIHGEWRGLAHGMGEARTE---- 199
Query: 228 KIQKGIVIGINKNGCLLLNTKFGKITISSGDV 259
+ G +G++++ +LL + I V
Sbjct: 200 AGRSGTFLGVDEDFGMLLRDETTTHLIPLTTV 231
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 37.5 bits (86), Expect = 0.004
Identities = 48/273 (17%), Positives = 91/273 (33%), Gaps = 67/273 (24%)
Query: 8 LNTSRIKNLYYNYNTDTKID-IRTILSTNSTNSNLLSIANTGLLFHPTFLATKIQTAGRG 66
L+ I ++ + + + + L + + L + FL + I+T R
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM-VQKFVEEVLRINYKFLMSPIKTEQRQ 104
Query: 67 RAGRIWYSEPEITLTFSLAWKFKISLKY-LTSLPLVISIALSIALKKFGQKVQLKWPNDL 125
+ + ++ F KY ++ L + L AL +L+ ++
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFA---KYNVSRLQPY--LKLRQALL------ELRPAKNV 153
Query: 126 LLNGNKFCG--IL-IDTC----IEKKNNN---WAIIGIGLNLGLPRILSKKINIGNISEL 175
L++G G + +D C ++ K + W LNL N + +
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW------LNLK---------NCNSPETV 198
Query: 176 LNMEHEKLLAVFICYLID-----------SLKLFEH---YGFSIFMKYWNFNHAYTNKTV 221
L M +KL Y ID ++KL H +K + +
Sbjct: 199 LEML-QKL-----LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL----- 247
Query: 222 DILKLNKIQKGIVIGINKNGC-LLLNTKFGKIT 253
L L +Q C +LL T+F ++T
Sbjct: 248 --LVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 36.6 bits (84), Expect = 0.008
Identities = 48/260 (18%), Positives = 77/260 (29%), Gaps = 106/260 (40%)
Query: 12 RIKNLY----YNYNTDTKIDIRTILSTNSTNSNLLSI---ANTGLLFHPTFLATKIQTAG 64
RI+ Y + D K+ I N + S + GLL F T Q
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIF--KEINEHSTSYTFRSEKGLLSATQF--T--Q--- 1733
Query: 65 RGRAGRIWYSEPEITLTFSLA----WK--FKI---------SL-KY--LTSLPLVISI-- 104
P + A K I SL +Y L SL V+SI
Sbjct: 1734 -----------PAL-TLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIES 1781
Query: 105 ALSIALKKFGQKVQLKWPNDLLLNGNKFCGILIDTCIEKKNNNWAIIGIGLNLGLPRILS 164
+ + + G +Q+ P D E +N+ +I I
Sbjct: 1782 LVEV-VFYRGMTMQVAVPRD-----------------ELGRSNYGMIAI----------- 1812
Query: 165 KKINIGNISELLNMEHEKLLAVFICYLIDSLKLFEHYGF--SIFMKYWNFNHA---Y--- 216
N G ++ + E + + + + G+ I N+N Y
Sbjct: 1813 ---NPGRVAASFSQEALQYVVERVG---------KRTGWLVEIV----NYNVENQQYVAA 1856
Query: 217 -TNKTVD----ILKLNKIQK 231
+ +D +L K+QK
Sbjct: 1857 GDLRALDTVTNVLNFIKLQK 1876
>1vqz_A Lipoate-protein ligase, putative; class II AARS and biotin
synthetases fold, SUFE/NIFU fold, S genomics; HET: MSE;
1.99A {Streptococcus pneumoniae} SCOP: d.224.1.3
d.104.1.3
Length = 341
Score = 33.1 bits (76), Expect = 0.071
Identities = 25/118 (21%), Positives = 40/118 (33%), Gaps = 29/118 (24%)
Query: 109 ALKKFGQKVQLKWPNDLLLNGNKFCG---------------ILIDTCIEKKNNNWAIIGI 153
L + G K + NDL ++G KFCG +L D + +
Sbjct: 120 TLAQLGVKAEFTGRNDLEIDGKKFCGNAQAYINGRIMHHGCLLFDVDLSV-------LAN 172
Query: 154 GLNLGLPRILSKKI-----NIGNISELL--NMEHEKLLAVFICYLIDSLKLFEHYGFS 204
L + + SK + + NI L + EK + + Y+ Y FS
Sbjct: 173 ALKVSKDKFESKGVKSVRARVTNIINELPKKITVEKFRDLLLEYMKKEYPEMTEYVFS 230
>2p5i_A BH3822 protein; PFAM03099, structural genomics, PSI-2, protein
structure initiative, NEW YORK structural genomix
research consortium; 2.21A {Bacillus halodurans c-125}
SCOP: d.104.1.3
Length = 288
Score = 30.7 bits (69), Expect = 0.44
Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 17/69 (24%)
Query: 79 TLTFSLAWK----FKISLKYLTSLPLVISIALSIALKKFGQKVQLKWP--------NDLL 126
L SL K F I Y L+ S + ++++ + DL
Sbjct: 103 ILNLSLVLKEEKGFSIDDGYELMYELICS-----MFQDHREQIEAREIVGSYCPGSYDLS 157
Query: 127 LNGNKFCGI 135
++G KF GI
Sbjct: 158 IDGKKFAGI 166
>2c8m_A Lipoate-protein ligase A; lipoylation; HET: LPA; 1.89A
{Thermoplasma acidophilum} SCOP: d.104.1.3 PDB: 2art_A*
2aru_A* 2c7i_A 2ars_A* 3r07_A
Length = 262
Score = 30.4 bits (69), Expect = 0.51
Identities = 10/95 (10%), Positives = 32/95 (33%), Gaps = 27/95 (28%)
Query: 123 NDLLLNGNKFCG---------------ILIDTCIEKKNNNWAIIGIGLNLGLPRILSKKI 167
D++ K G +L+ T ++ + L + + K
Sbjct: 137 TDIMAGEKKIMGAAGAMRKGAKLWHAAMLVHTDLDM-------LSAVLKVPDEKFRDKIA 189
Query: 168 N-----IGNISELLNMEHEKLLAVFICYLIDSLKL 197
+ N+++ +++ +++ I ++L +
Sbjct: 190 KSTRERVANVTDFVDVSIDEVRNALIRGFSETLHI 224
>2p0l_A Lipoate-protein ligase A; PFAM, lopoate-protein ligase A, 10425H,
structural genomics, structure initiative, PSI-2; 2.04A
{Streptococcus agalactiae} SCOP: d.104.1.3
Length = 288
Score = 29.6 bits (66), Expect = 0.89
Identities = 19/71 (26%), Positives = 25/71 (35%), Gaps = 19/71 (26%)
Query: 79 TLTFSLAW------KFKISLKYLTSLPLVISIALSIALKKFGQKVQLKWP--------ND 124
L FSL K IS YL + + S F Q ++ D
Sbjct: 100 ILNFSLVIPDVFERKLSISDGYLIMVDFIRS-----IFSDFYQPIEHFEVETSYCPGKFD 154
Query: 125 LLLNGNKFCGI 135
L +NG KF G+
Sbjct: 155 LSINGKKFAGL 165
>3ll3_A Gluconate kinase; xylulose kinase, nysgx, ATP, ADP, xylulose,
transferase, structural genomics, PSI-2, protein
structure initiative; HET: ATP DXP XUL ADP; 2.00A
{Lactobacillus acidophilus} PDB: 3gbt_A*
Length = 504
Score = 26.8 bits (60), Expect = 10.0
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 15/44 (34%)
Query: 47 TGLLFHPTFLATKIQTAGRGRAGRIWYS--EPEITLTFSLAWKF 88
TG+ HP K+ +W + E+ FS A K+
Sbjct: 124 TGMPMHPMAPIYKL----------LWLKNKKTEV---FSQAQKW 154
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.139 0.413
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,855,623
Number of extensions: 219375
Number of successful extensions: 445
Number of sequences better than 10.0: 1
Number of HSP's gapped: 414
Number of HSP's successfully gapped: 21
Length of query: 265
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,133,061
Effective search space: 715019553
Effective search space used: 715019553
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.3 bits)