RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9480
(395 letters)
>3tig_A TTL protein; ATP-grAsp, ligase, tubulin; 2.50A {Silurana} PDB:
3tii_A* 3tin_A*
Length = 380
Score = 255 bits (653), Expect = 3e-82
Identities = 75/371 (20%), Positives = 146/371 (39%), Gaps = 54/371 (14%)
Query: 36 CMYKIVEDVATLMGMGIVRDDEEPWDVYWSDFSV--STVMSKSMEVYHRINHFPGMANLE 93
++ + + ++ D +++ + + + + +N++ G L
Sbjct: 16 VYAEVAKILLASGQWKRLKRDNPKFNLMLGERNRLPFGRLGHEPGLVQLVNYYRGADKLC 75
Query: 94 SKAFLAYHLNRMR------NHFPEDYDFYPRSWSLP-----------------YQQEDFL 130
KA L + FPE Y YP + P ++E+F
Sbjct: 76 RKASLVKLIKTSPELTETCTWFPESYVIYPTNEKTPAMRARNGLPDLANAPRTDEREEFR 135
Query: 131 SYVRE----HPHQVFISKPSRGAEGKGIKIFNTLEEARGIYTES----VSQLYMSNLLLM 182
S + V+I+K S GA+G+GI I + E V Q Y+ + LL+
Sbjct: 136 SSFNKKKENEEGNVWIAKSSSGAKGEGILISSDATELLDFIDNQGQVHVIQKYLESPLLL 195
Query: 183 D--GFKFDLRVYVLITCIDPLRIFVYNNGLVRLATCQYTSPETGNLTNQYMHLTNYSVNK 240
+ KFD+R +VL+ + I++Y G++R ++ Y+ N + HLTN+ + K
Sbjct: 196 EPGHRKFDIRSWVLVD--NQYNIYLYREGVLRTSSEPYSDT---NFQDMTSHLTNHCIQK 250
Query: 241 SSENYNKSPERGSKRDFTALNSWLLSQGLNS--TKLWNDIDDIIIKTIISVYPILKEKYE 298
E G++ F N +L++ + + I +II + + P + KY
Sbjct: 251 EHSKNYGRYEEGNEMFFEEFNQYLVTSLNINLENSILCQIKEIIRVCLSCLEPAISTKY- 309
Query: 299 DLLPEHYHHNVSASFEILGFDILIDSTMKPFLLEVNRSPSFNIAGIVDERVKRTLIYDTF 358
YH SF++ GFD ++D +K +L+EVN +P+ + + + ++
Sbjct: 310 ----LPYH-----SFQLFGFDFMVDKNLKVWLIEVNGAPACAQK--LYAELCKGIVDLAI 358
Query: 359 KILNLNQNRKS 369
+
Sbjct: 359 SSVFPLNEENH 369
>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 = 59.9 bits (144), Expect = 9e-10
Identities = 49/417 (11%), Positives = 108/417 (25%), Gaps = 133/417 (31%)
Query: 24 PRPKEATINLKRCMYKI-VEDVATLMGMG----------IVRDDEE----PWDVYWSDFS 68
R + L++ + ++ + G+ + + + ++W
Sbjct: 132 SRLQPYL-KLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW---- 186
Query: 69 VSTVMSKSMEVYHRINHFPGMANLESKAFLAYHLNRMRNHFPEDYDFYP-RSWSLPYQQE 127
+N + N S + L ++ ++ S ++ +
Sbjct: 187 --------------LN----LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 128 DFLSYVREHPHQVFISKPSRGAEGKGIKIFNTLEEARGIYTESVSQLYMSNLLLMDGFK- 186
+ +R SKP Y LL++ +
Sbjct: 229 SIQAELRRL----LKSKP---------------------YENC--------LLVLLNVQN 255
Query: 187 ------FDLRVYVLIT-----CIDPLRIFVYNNGLVRLATCQYTSPETGNLTNQYMHLTN 235
F+L +L+T D L + + + T E +L +Y+
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC-- 313
Query: 236 YSVNKSSENYNKSPERGSKRDFTALN--SWLLSQGLNSTKLWNDIDDIIIKTIISVYPIL 293
P + L+ + + GL + W ++ + TII L
Sbjct: 314 --------RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES--SL 363
Query: 294 KEKYEDLLPEHYHHNVSASFEILGFDILIDSTMKPFLLEV--NRSPSFNIAGIVDERVKR 351
+ + + I LL + ++ +V++ K
Sbjct: 364 NVLEPAEYRKMFD-----RLSVFPPSAHI--PTI--LLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 352 TL-----------IYD-----TFKILNLNQNRKSIL--------FPSNDDSENQSSN 384
+L I K+ N +SI+ F S+D
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ 471
Score = 45.2 bits (106), Expect = 3e-05
Identities = 55/366 (15%), Positives = 105/366 (28%), Gaps = 74/366 (20%)
Query: 52 IVRDDEEPWDVYWSDFSVSTVMSKSMEVYHR--INHFPGMANLESKAFLAYHL-----NR 104
I+ E+ + +F V + + I+H + S +
Sbjct: 21 ILSVFEDA---FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 105 MRNHFPE-----DYDFYPRSWSLPYQQE--DFLSYVREHPH-----QVFISKP-SRGAEG 151
M F E +Y F +Q Y+ + QVF SR
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR---- 133
Query: 152 KGIKIFNTLEEARGIYTESVSQLY-MSNLLL--MDGF-KFDLRVYVLITCIDPLRIFVYN 207
++ + L +A + +L N+L+ + G K L C+ +
Sbjct: 134 --LQPYLKLRQA-------LLELRPAKNVLIDGVLGSGK---TWVALDVCLSYKVQCKMD 181
Query: 208 NGL--VRLATCQYTSPETGNLTNQYMHLT-NYSVN-KSSENYNKSPERGSKRDFTALNSW 263
+ + L C L + N++ S N L S
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 264 LLSQGLNSTKLWNDIDDIIIKTIISVY----PIL-----KEKYEDLLPEHYHHNVSASFE 314
L L + ++ + + IL K+ + L H +S
Sbjct: 242 PYENCL----L--VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH-ISLDHH 294
Query: 315 ILGF------DILIDST-MKPFLL--EVNR-SPSFNIAGIVDERVKRTLIYDTFKILNLN 364
+ +L+ +P L EV +P ++ I + +D +K +N +
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP-RRLSIIAESIRDGLATWDNWKHVNCD 353
Query: 365 QNRKSI 370
+ I
Sbjct: 354 KLTTII 359
Score = 39.1 bits (90), Expect = 0.002
Identities = 35/229 (15%), Positives = 59/229 (25%), Gaps = 96/229 (41%)
Query: 50 MGIVRDDEE-PWDV---YWSDFSVSTVM-------SKSM-------------EVY----- 80
+ + P + W D S VM S+ +Y
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV 437
Query: 81 --------HR--INHFPGMANLESKA------------FLAYHLNRMRNHFPEDYDFYPR 118
HR ++H+ +S + +HL + + E +
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP--ERMTLFRM 495
Query: 119 SWSLPYQQEDFLSYVREHPHQVFISKPSRGAEGKGIKIFNTLEEARGIYTESVSQLYMSN 178
FL + R F+ E K I+ +T A G + N
Sbjct: 496 V---------FLDF-R------FL-------EQK-IRHDSTAWNASG---------SILN 522
Query: 179 LLLMDGFKFDLRVYV-LITCIDPL---RIFVYNNGLVRLATCQYTSPET 223
L L+ Y I DP + + L ++ S T
Sbjct: 523 TLQ------QLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYT 565
>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 = 48.1 bits (114), Expect = 4e-06
Identities = 55/320 (17%), Positives = 100/320 (31%), Gaps = 103/320 (32%)
Query: 85 HFPGMA-NLESKAFLAYHL-NRMRNHFPEDYDFYPRSWSLPYQQEDFLSYVREHPHQVFI 142
GM +L + A + NR NHF + Y F S+ L V +P
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGF-----SI-------LDIVINNP----- 1669
Query: 143 SKPSRGAEGKGIKIFNTLEEARGIYTESVSQLYMSNLL--LMDGFKFDLRVYVLITCIDP 200
+ I E+ + I + Y + + ++DG +++ I
Sbjct: 1670 ---------VNLTIHFGGEKGKRIR-----ENYSAMIFETIVDGKLKTEKIFKEINEHST 1715
Query: 201 LRIFVYNNGLVRLATCQYTSPETGNLTNQYMHLTNYSVNKSSENYNKSPERGSKRD---- 256
F GL+ T Q+T P + L + + + +G
Sbjct: 1716 SYTFRSEKGLLSA-T-QFTQPA--------LTLMEKAAFEDLK------SKGLIPADATF 1759
Query: 257 -------FTALNSWLLSQGLNSTKLWNDIDDIII------KTIISVYPILKEKYED---- 299
+ AL S L+ + I+ ++ T+ P + +
Sbjct: 1760 AGHSLGEYAALAS--LADVM-------SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMI 1810
Query: 300 -LLPEHYHHNVSASFEILGFDILID--STMKPFLLE-VNRSPSFNIAG--IV---DERVK 350
+ P V+ASF +++ +L+E VN +N+ V D R
Sbjct: 1811 AINPG----RVAASFSQEALQYVVERVGKRTGWLVEIVN----YNVENQQYVAAGDLRAL 1862
Query: 351 RTLIYDTFKILNLNQNRKSI 370
T+ +LN + I
Sbjct: 1863 DTVT----NVLNFI-KLQKI 1877
Score = 39.6 bits (92), Expect = 0.002
Identities = 37/271 (13%), Positives = 76/271 (28%), Gaps = 89/271 (32%)
Query: 119 SWSLP------YQQ--EDFLSYVREHPHQVFISKPSRGAEGKGIKIFNTLEEARGIYTES 170
+P Q E F + E P+ G +E +
Sbjct: 19 VLLVPTASFFIASQLQEQFNKILPE---------PTEGFAAD--------DE-----PTT 56
Query: 171 VSQLYMSNLLLMDGF--------KFDLRVYVLITCIDPL-RIFVYNNGLVRLATCQYTSP 221
++L L G+ K VL C+ ++ N + LA +
Sbjct: 57 PAELVGKFL----GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA-AKLLQE 111
Query: 222 ETGNLTNQYMHLTNY-----SVNKSSENYNKSP-----ERGSKRDFTALNSWLLSQGLNS 271
L + NY + + + S G+ + QG
Sbjct: 112 NDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG----QGNTD 167
Query: 272 T------KLWND----IDDIIIKTIISVYPILKEKYEDLLPEHYHHNVSASFEILGFDI- 320
L+ + D+I + ++ +++ + + + G +I
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA--EKVFTQ---------GLNIL 216
Query: 321 --LIDSTMKP---FLLEVNRSP-SFNIAGIV 345
L + + P +LL + P S + G++
Sbjct: 217 EWLENPSNTPDKDYLLSI---PISCPLIGVI 244
>2p0a_A Synapsin-3, synapsin III; neurotransmitter release, schizophrenia,
vesicle T structural genomics, structural genomics
consortium, SGC, neuropeptide; HET: ANP; 1.90A {Homo
sapiens}
Length = 344
Score = 31.7 bits (71), Expect = 0.38
Identities = 19/115 (16%), Positives = 37/115 (32%), Gaps = 11/115 (9%)
Query: 83 INHFPGMANLESKAFLAYHLNRMRNHFPEDYDFYPRSWSLPYQQEDFLSY-VREHPHQVF 141
+N + N SK ++ L ++ + P + L Q + PH
Sbjct: 119 VNSLYSVYNFCSKPWVFSQLIKIFHSLG------PEKFPLVEQTFFPNHKPMVTAPHFPV 172
Query: 142 ISKPSRGAEGKGIKIFNTLEEARGIYTESVSQLYMSNLLLMDG--FKFDLRVYVL 194
+ K G G + + I SV + + K+D+R+ +
Sbjct: 173 VVKLGHAHAGMGKIKVENQLDFQDI--TSVVAMAKTYATTEAFIDSKYDIRIQKI 225
>2zws_A Neutral ceramidase; prism fold and beta-sandwich fold, hydrolase,
lipid metaboli secreted; HET: PLM; 1.40A {Pseudomonas
aeruginosa} PDB: 2zxc_A*
Length = 646
Score = 31.4 bits (70), Expect = 0.58
Identities = 18/120 (15%), Positives = 39/120 (32%), Gaps = 1/120 (0%)
Query: 274 LWNDIDDIIIKTIISVYP-ILKEKYEDLLPEHYHHNVSASFEILGFDILIDSTMKPFLLE 332
++ + ++ + + YP + E L H H +++ + +
Sbjct: 66 IFQAVHLKVLARLKAKYPGVYDENNVMLAATHTHSGPGGFSHYAMYNLSVLGFQEKTFNA 125
Query: 333 VNRSPSFNIAGIVDERVKRTLIYDTFKILNLNQNRKSILFPSNDDSENQSSNSDHQASTL 392
+ +I L Y + ++ N ++NR + N D D Q S L
Sbjct: 126 IVDGIVRSIERAQARLQPGRLFYGSGELRNASRNRSLLSHLKNPDIAGYEDGIDPQMSVL 185
>1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
c.30.1.6 d.142.1.7 PDB: 1uc9_A*
Length = 280
Score = 30.5 bits (69), Expect = 0.80
Identities = 8/43 (18%), Positives = 15/43 (34%), Gaps = 11/43 (25%)
Query: 314 EILGFDILIDSTMKPFLLEVNRSPSF---------NIAG-IVD 346
++ D+ + EVN + F +I G I+
Sbjct: 232 GVVAVDLFESER-GLLVNEVNHTMEFKNSVHTTGVDIPGEILK 273
>2io8_A Bifunctional glutathionylspermidine synthetase/amidase; ligase,
hydrolase; HET: ADP; 2.10A {Escherichia coli} SCOP:
c.30.1.7 d.3.1.15 d.142.1.8 PDB: 2io7_A* 2io9_A* 2ioa_A*
2iob_A 3o98_A*
Length = 619
Score = 30.0 bits (67), Expect = 1.5
Identities = 14/82 (17%), Positives = 25/82 (30%), Gaps = 18/82 (21%)
Query: 92 LESKAFLAYHLNRMRNHFPEDYDFYPRSWSLPYQQEDFLSYVREHPHQVFISKPSRGAEG 151
+KA L + +H Y + + E + KP G G
Sbjct: 495 PGNKAILPILWSLFPHH--------------RYLLDTDFTVNDELVKTGYAVKPIAGRCG 540
Query: 152 KGIKIFN----TLEEARGIYTE 169
I + + L++ G + E
Sbjct: 541 SNIDLVSHHEEVLDKTSGKFAE 562
>2pn1_A Carbamoylphosphate synthase large subunit; ZP_00538348.1, ATP-grAsp
domain, carbamoylphosphate synthase subunit (split gene
in MJ); 2.00A {Exiguobacterium sibiricum}
Length = 331
Score = 29.4 bits (66), Expect = 1.9
Identities = 19/121 (15%), Positives = 43/121 (35%), Gaps = 12/121 (9%)
Query: 92 LESKAFLAYHLNRMRNHFPEDYDFYPRSWSLPYQQEDFLSYVREHPHQVFISKPSRGAEG 151
K + + R + R+++ + E VF+ KP G+
Sbjct: 112 CFDKYTMYEYCLR--QGIA-----HARTYAT-MASFEEALAAGEVQLPVFV-KPRNGSAS 162
Query: 152 KGIKIFNTLEEARGIYTESVSQLYMSNLLLMDGFKFDLRVYVLITCIDPLRIFVYNNGLV 211
++ T+EE +++++ + L+ G + + YV + IF+ +
Sbjct: 163 IEVRRVETVEEVEQLFSKNTDLIVQE---LLVGQELGVDAYVDLISGKVTSIFIKEKLTM 219
Query: 212 R 212
R
Sbjct: 220 R 220
>1z2n_X Inositol 1,3,4-trisphosphate 5/6-kinase; inositol phosphate kinase,
ATP-grAsp, transferase; HET: ADP; 1.20A {Entamoeba
histolytica} PDB: 1z2o_X* 1z2p_X*
Length = 324
Score = 29.4 bits (65), Expect = 2.1
Identities = 13/78 (16%), Positives = 30/78 (38%), Gaps = 3/78 (3%)
Query: 265 LSQGLNSTKLWNDIDDIIIKTIISVYPILKEKYEDLLPEHYHHNVSASF--EILGFDILI 322
+G+ + + + I PIL + + V + ++ G D +
Sbjct: 224 WPEGVIDKQDIIENSANRFGSKILEDPILLNLTSEAEMRDLAYKVRCALGVQLCGIDFIK 283
Query: 323 DS-TMKPFLLEVNRSPSF 339
++ P +++VN PS+
Sbjct: 284 ENEQGNPLVVDVNVFPSY 301
>2q7d_A Inositol-tetrakisphosphate 1-kinase; inositol kinase, ITPK1,
inositol 1,3,4-5/6 phosphate, inositol phosphate,
inositolphosphate; HET: ANP; 1.60A {Homo sapiens} PDB:
2qb5_A* 2odt_X
Length = 346
Score = 28.9 bits (64), Expect = 2.8
Identities = 7/26 (26%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 315 ILGFDILIDS-TMKPFLLEVNRSPSF 339
+ G DI+I++ T + ++++N P +
Sbjct: 288 LFGIDIIINNQTGQHAVIDINAFPGY 313
>3fbt_A Chorismate mutase and shikimate 5-dehydrogenase fusion protein;
structural genomics, oxidoreductase, amino-acid
biosynthesis; 2.10A {Clostridium acetobutylicum}
Length = 282
Score = 28.7 bits (65), Expect = 3.7
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 5/46 (10%)
Query: 264 LLSQGLNSTKLWNDI--DDIIIKTIISVYPILKEKYEDLLPEHYHH 307
L+SQ S ++WNDI D+II+ I +L+EK + H+HH
Sbjct: 240 LVSQAAASEEIWNDISIDEIIVDEIFE---VLEEKIKSEGHHHHHH 282
>2frn_A Hypothetical protein PH0793; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 2.10A {Pyrococcus horikoshii OT3} SCOP:
c.66.1.47 PDB: 3k6r_A 3a25_A* 3a26_A*
Length = 278
Score = 28.4 bits (63), Expect = 3.8
Identities = 15/93 (16%), Positives = 31/93 (33%), Gaps = 12/93 (12%)
Query: 288 SVYPILKEKYEDLLPEHYHHNVSASFEILGFDILI---DSTMKPFLLEVNRSPSFNIAGI 344
+ P ++E LPE + + +G D+L+ ++P+ IA +
Sbjct: 5 GIKPRIREILSKELPEELVKLLPKRWVRIG-DVLLLPLRPELEPYKHR--------IAEV 55
Query: 345 VDERVKRTLIYDTFKILNLNQNRKSILFPSNDD 377
E + + I + L +D
Sbjct: 56 YAEVLGVKTVLRKGHIHGETRKPDYELLYGSDT 88
>2abw_A PDX2 protein, glutaminase; PLP-synthase, vitamin B6, malaria,
transferase; HET: PG4; 1.62A {Plasmodium falciparum}
SCOP: c.23.16.1 PDB: 4ads_G
Length = 227
Score = 28.1 bits (62), Expect = 3.9
Identities = 9/84 (10%), Positives = 18/84 (21%), Gaps = 11/84 (13%)
Query: 133 VREHPHQVFISKPSRGAEGKGIKIFNTLEEARGIYTESVSQLYMSNLLLMDGFKFDLRVY 192
H FI ++ + L G+ + +
Sbjct: 15 FEPH-INHFIKLQIPSLNIIQVRNVHDLGLCDGLVIPGGESTTVRRCCAYENDTL----- 68
Query: 193 VLITCIDPLRIFVYNNGLVRLATC 216
+ L F++ TC
Sbjct: 69 -----YNALVHFIHVLKKPIWGTC 87
>1i7n_A Synapsin II; synapse, phosphorylation, neuropeptide; 1.90A {Rattus
norvegicus} SCOP: c.30.1.5 d.142.1.3 PDB: 1i7l_A 1auv_A
1aux_A*
Length = 309
Score = 28.2 bits (62), Expect = 4.2
Identities = 16/117 (13%), Positives = 32/117 (27%), Gaps = 15/117 (12%)
Query: 83 INHFPGMANLESKAFLAYHLNRMRNHFPEDYDFYPRSWSLPYQQEDF-LSYVREHPHQVF 141
IN + N K ++ + + + L Q + P
Sbjct: 102 INSLESIYNFCDKPWVFAQMVAIFKTLG------GEKFPLIEQTYYPNHREMLTLPTFPV 155
Query: 142 ISKPSRGAEGKGIKIFNTLEEARGIYTESVSQLYMSNLLLMDG----FKFDLRVYVL 194
+ K G G + + I S + ++ K+D+RV +
Sbjct: 156 VVKIGHAHSGMGKVKVENHYDFQDI----ASVVALTQTYATAEPFIDAKYDIRVQKI 208
>1iow_A DD-ligase, DDLB, D-ALA\:D-Ala ligase; glycogen phosphorylase, cell
WALL, peptidoglycan synthesis, vancomycin, ADP binding;
HET: ADP PHY; 1.90A {Escherichia coli} SCOP: c.30.1.2
d.142.1.1 PDB: 1iov_A* 2dln_A* 3v4z_A*
Length = 306
Score = 27.9 bits (63), Expect = 5.8
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 6/31 (19%)
Query: 313 FEILG------FDILIDSTMKPFLLEVNRSP 337
+ LG D+++DS + +LLE N SP
Sbjct: 245 WTTLGCKGWGRIDVMLDSDGQFYLLEANTSP 275
>4eg0_A D-alanine--D-alanine ligase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.65A {Burkholderia ambifaria} PDB: 4egq_A
Length = 317
Score = 27.9 bits (63), Expect = 6.3
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 6/31 (19%)
Query: 313 FEILG------FDILIDSTMKPFLLEVNRSP 337
F++LG D ++D+ + LEVN +P
Sbjct: 254 FDVLGCTDWGRADFMLDAAGNAYFLEVNTAP 284
>3df7_A Putative ATP-grAsp superfamily protein; putative protein, PSI-II,
nysgrc., structural genomics, protein structure
initiative; 1.87A {Archaeoglobus fulgidus}
Length = 305
Score = 27.7 bits (61), Expect = 6.6
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 141 FISKPSRGAEGKGIKIFNTLEEA 163
FI KP G+GI + + +
Sbjct: 136 FIIKPRTACAGEGIGFSDEVPDG 158
>3hts_B Heat shock transcription factor; transcription regulation,
DNA-binding protein, complex (WING helix_TURN_
helix-DNA); 1.75A {Kluyveromyces lactis} SCOP: a.4.5.22
PDB: 2hts_A 1fyk_A* 1fym_A 1fyl_A 3hsf_A 1fbu_A 1fbs_A
1fbq_A
Length = 102
Score = 26.3 bits (58), Expect = 7.7
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 10/51 (19%)
Query: 272 TKLWNDIDDIIIKTIIS---------VYPILKEKYEDLLPEHYHHNVSASF 313
KLW+ ++D + I V + +++LP+++ H+ ASF
Sbjct: 17 NKLWSMVNDKSNEKFIHWSTSGESIVVPNR-ERFVQEVLPKYFKHSNFASF 66
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
0.319 0.135 0.400
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,104,885
Number of extensions: 370103
Number of successful extensions: 865
Number of sequences better than 10.0: 1
Number of HSP's gapped: 855
Number of HSP's successfully gapped: 29
Length of query: 395
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 299
Effective length of database: 4,021,377
Effective search space: 1202391723
Effective search space used: 1202391723
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 (21.7 bits)
S2: 58 (26.0 bits)