RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5867
(287 letters)
>1jhj_A APC10; beta sandwich, jellyroll, cell cycle; 1.60A {Homo sapiens}
SCOP: b.18.1.9
Length = 171
Score = 197 bits (502), Expect = 7e-64
Identities = 108/176 (61%), Positives = 132/176 (75%), Gaps = 23/176 (13%)
Query: 10 DPVMEERLGRIREVGSQAIWSLSSCKPGFGVDQLRDDCMDTYWQSDGQLPHLVNVQFRRK 69
DP ER G +RE+GSQA+WSLSSCKPGFGVDQLRDD ++TYWQSDG PHLVN+QFRRK
Sbjct: 11 DPKQLERTGTVREIGSQAVWSLSSCKPGFGVDQLRDDNLETYWQSDGSQPHLVNIQFRRK 70
Query: 70 TTVQDICIYRQLPHLVNVQFRRKTTVQDICIYTDYKLDESYTPSRVSVRAGTNFNDLQEI 129
TTV+ +CIY DYK DESYTPS++SVR G NF++LQEI
Sbjct: 71 TTVKTLCIY-----------------------ADYKSDESYTPSKISVRVGNNFHNLQEI 107
Query: 130 EVVDLNEPSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQ 185
++L EPSGW+ +P+ D H KP RT+MIQIAV++NHQNGRDTHMRQIK+Y+PV++
Sbjct: 108 RQLELVEPSGWIHVPLTDNHKKPTRTFMIQIAVLANHQNGRDTHMRQIKIYTPVEE 163
Score = 101 bits (253), Expect = 1e-26
Identities = 50/100 (50%), Positives = 72/100 (72%), Gaps = 5/100 (5%)
Query: 170 RDTHMRQIKVYSPVQQHPSTMFTTVECQQVSVRAGTNFNDLQEIEVVDLNEPSGWVKIPI 229
R T ++ + +Y+ + S ++SVR G NF++LQEI ++L EPSGW+ +P+
Sbjct: 69 RKTTVKTLCIYADYKSDESYT-----PSKISVRVGNNFHNLQEIRQLELVEPSGWIHVPL 123
Query: 230 KDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQ 269
D H KP RT+MIQIAV++NHQNGRDTHMRQIK+Y+PV++
Sbjct: 124 TDNHKKPTRTFMIQIAVLANHQNGRDTHMRQIKIYTPVEE 163
>1gqp_A DOC1/APC10; cell cycle, APC10/DOC1, APC/cyclosome, ubiquitination,
E3 ubiquitin ligase, beta sandwich, jelly roll; 2.2A
{Saccharomyces cerevisiae} SCOP: b.18.1.9
Length = 221
Score = 192 bits (488), Expect = 4e-61
Identities = 51/183 (27%), Positives = 84/183 (45%), Gaps = 25/183 (13%)
Query: 10 DPVMEERLGRIREVGSQAIWSLSSCKPGFGVDQLRDDCMDTYWQSDGQLPHLVNVQFRRK 69
+ R+ V A+W SS K G VD DD DT+WQSDG PH +++ F ++
Sbjct: 42 QGIEILDSARMINVTHLALWKPSSFKLGNPVDFALDDNYDTFWQSDGGQPHQLDIMFSKR 101
Query: 70 TTVQDICIYRQLPHLVNVQFRRKTTVQDICIYTDYKLDESYTPSRVSVRAGTNFNDLQEI 129
+ + I+ DESY PS V V AG + +D +
Sbjct: 102 MDICVMAIF-----------------------FSMIADESYAPSLVKVYAGHSPSDARFY 138
Query: 130 EVVDLNEPSGWVKIPIKDI--HDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQHP 187
+++++ +GWV + D D+ ++ I++ NH+NG+DTH+R I++Y P +
Sbjct: 139 KMLEVRNVNGWVALRFLDNREDDQLLKCQFIRLLFPVNHENGKDTHLRGIRLYVPSNEPH 198
Query: 188 STM 190
Sbjct: 199 QDT 201
Score = 100 bits (249), Expect = 1e-25
Identities = 22/81 (27%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 196 CQQVSVRAGTNFNDLQEIEVVDLNEPSGWVKIPIKDI--HDKPIRTYMIQIAVMSNHQNG 253
V V AG + +D + +++++ +GWV + D D+ ++ I++ NH+NG
Sbjct: 121 PSLVKVYAGHSPSDARFYKMLEVRNVNGWVALRFLDNREDDQLLKCQFIRLLFPVNHENG 180
Query: 254 RDTHMRQIKVYSPVQQHPSTM 274
+DTH+R I++Y P +
Sbjct: 181 KDTHLRGIRLYVPSNEPHQDT 201
>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 = 42.9 bits (100), Expect = 9e-05
Identities = 45/374 (12%), Positives = 100/374 (26%), Gaps = 114/374 (30%)
Query: 2 SSKDIFEKDPVM-EERLGRIREVGSQAIWSLSSCK-------PGFG-----VDQLRDD-- 46
+ +F K V + ++R QA+ L K G G +D
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLR----QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 47 --CMD--TYWQSDGQ-------LPHLVNVQFR---------------------RKTTVQD 74
MD +W + L L + ++ + ++
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 75 ICIYRQLPH--LV--NVQ---------FRRKT--TVQDICIYTDYKLDESYTPSRVSVRA 119
+ + + LV NVQ K T + + TD+ L + T
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV-TDF-LSAATTTHISLDHH 294
Query: 120 GTNFNDLQEIEVVDLNEPSGWVKIPIKD-------IHDKPIRTYMIQIAVMSNHQNGRDT 172
+ ++ ++ +D + P R +I + +
Sbjct: 295 SMTLTPDEVKSLL-----LKYLDCRPQDLPREVLTTN--PRRLSIIA-ESIRDGLA-TWD 345
Query: 173 HMRQIKVYSPVQQHPSTMFTTVECQQVS-VRAGTNFNDLQEIEVVDLNEPSG-----WVK 226
+ + + + + + +++ + + R F+ L + + P+ W
Sbjct: 346 NWKHVNCD----KLTTIIESSLNVLEPAEYRK--MFDRL-SVFPPSAHIPTILLSLIWFD 398
Query: 227 IP-----------------IKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQ 269
+ K + I I + + +N H + Y+ +
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 270 HPSTMFTTVECQQY 283
S QY
Sbjct: 459 FDSDDLIPPYLDQY 472
Score = 38.7 bits (89), Expect = 0.002
Identities = 29/155 (18%), Positives = 58/155 (37%), Gaps = 45/155 (29%)
Query: 41 DQLRDDCMDTYWQSDGQLP-HLVNVQFRRKTTVQDICIYRQLPHLVNVQF-RRK------ 92
D L +D Y+ S + HL N++ + T ++R + ++ +F +K
Sbjct: 462 DDLIPPYLDQYFYS--HIGHHLKNIEHPERMT-----LFRMV--FLDFRFLEQKIRHDST 512
Query: 93 ---------TTVQDICIYTDYKLDESYTPSRVSVRAGTNFNDLQEIEVVDLNEPSGWVKI 143
T+Q + Y Y D R+ V A +F L +IE +
Sbjct: 513 AWNASGSILNTLQQLKFYKPYICDNDPKYERL-VNAILDF--LPKIEENLICSKY----- 564
Query: 144 PIKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIK 178
D+ ++IA+M+ + + +Q++
Sbjct: 565 --TDL---------LRIALMAEDEAIFEEAHKQVQ 588
Score = 32.5 bits (73), Expect = 0.18
Identities = 44/328 (13%), Positives = 97/328 (29%), Gaps = 110/328 (33%)
Query: 3 SKDIFEKDPVMEERLGRIREVGSQAIWSLSSCKP----GFGVDQLRDD-CMDTYWQSDGQ 57
K + K ++ R + + + + P + +RD W+
Sbjct: 303 VKSLLLK--YLDCRPQDLPR---EVL----TTNPRRLSIIA-ESIRDGLATWDNWK---- 348
Query: 58 LPHLVNVQFRRKTTVQDICI-----------YRQL---PHLVNVQFRRKTTVQDICIYTD 103
+V + TT+ + + + +L P ++ + +
Sbjct: 349 -----HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI------PTILLSLI-- 395
Query: 104 YKLDESYTPSRVSVRAGTNFNDLQEIEVVDLNEPSGWVKIP------------IKDIHDK 151
+ V N L + +V+ + IP +H
Sbjct: 396 WFDVIKSDVMVV-------VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 152 PIRTYMIQIAVMSNH--QNGRDT--------HMRQIKVYSPVQQHPSTMFTTV----ECQ 197
+ Y I S+ D H++ I+ T+F V
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE-----HPERMTLFRMVFLDFRFL 503
Query: 198 QVSVRA--------GTNFNDLQEIE-----VVDLNEPSGWVKIPIKDIHD-------KPI 237
+ +R G+ N LQ+++ + D N+P + + I D I
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICD-NDPK--YERLVNAILDFLPKIEENLI 560
Query: 238 R---TYMIQIAVMSNHQNGRDTHMRQIK 262
T +++IA+M+ + + +Q++
Sbjct: 561 CSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
>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 = 40.0 bits (93), Expect = 8e-04
Identities = 35/261 (13%), Positives = 75/261 (28%), Gaps = 104/261 (39%)
Query: 38 FGVDQLRDDCM-------DTYWQSD--GQLPHLVNVQF----RRKTTVQDICIYRQLPHL 84
F QL++ + + D LV +F + + Q+ +L
Sbjct: 28 FIASQLQEQFNKILPEPTEGFAADDEPTTPAELV-GKFLGYVSSLVEPSKVGQFDQVLNL 86
Query: 85 VNVQFRRKTTVQDICIYTDYKLDESYTPSRVSVRAGTNFNDLQEIEVVDLNEPSGWVKIP 144
+F Y L+ ND+ + L + + +
Sbjct: 87 CLTEFEN-----------CY-LEG---------------NDIHAL-AAKLLQENDTTLVK 118
Query: 145 IKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQHPSTMFTTVECQQVSVRA- 203
K++ I+ Y I +M+ + + S +F V + A
Sbjct: 119 TKEL----IKNY-ITARIMAKRPFDK--------------KSNSALFRAVGEGNAQLVAI 159
Query: 204 ----GTN---FNDLQEI---------EVVD-----LNE------------PSG-----WV 225
G F +L+++ +++ L+E G W+
Sbjct: 160 FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 226 KIPIKDIHDKPIRTYMIQIAV 246
+ P + P + Y++ I +
Sbjct: 220 ENP----SNTPDKDYLLSIPI 236
Score = 38.1 bits (88), Expect = 0.003
Identities = 53/308 (17%), Positives = 97/308 (31%), Gaps = 132/308 (42%)
Query: 4 KDIFEK-DPVMEERLG-RIREVGSQAIWSLSSCKPGFGVDQLRDDCMDTYWQS--DGQL- 58
+D++ + D ++ G I ++ +L+ G ++R++ +++ DG+L
Sbjct: 1643 QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLK 1702
Query: 59 ---------PHLVNVQFR------RKT--TVQ------DICIYRQL------P------- 82
H + FR T T Q + + L P
Sbjct: 1703 TEKIFKEINEHSTSYTFRSEKGLLSATQFT-QPALTLMEKAAFEDLKSKGLIPADATFAG 1761
Query: 83 H-------------------LVNVQFRRKTTVQDICIYTDYKLDESY-----TPSRVSVR 118
H LV V F R T+Q + D +Y P RV+
Sbjct: 1762 HSLGEYAALASLADVMSIESLVEVVFYRGMTMQV-AVPRDELGRSNYGMIAINPGRVA-- 1818
Query: 119 AGTNFNDLQEIEVVDLNEPSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIK 178
A + LQ + V + + +GW+ ++I N+ N
Sbjct: 1819 ASFSQEALQYV-VERVGKRTGWL----------------VEIV---NY-N---------- 1847
Query: 179 VYSPVQQHPSTMFTTVECQQVSVRAGT-----------NFNDLQEIEVVDLNEPSGWVKI 227
VE QQ V AG NF LQ+I++++L +
Sbjct: 1848 ---------------VENQQY-VAAGDLRALDTVTNVLNFIKLQKIDIIELQ-----KSL 1886
Query: 228 PIKDIHDK 235
++++
Sbjct: 1887 SLEEVEGH 1894
Score = 34.3 bits (78), Expect = 0.058
Identities = 30/204 (14%), Positives = 57/204 (27%), Gaps = 92/204 (45%)
Query: 111 TPSR-VSVRAGTNFNDLQE-IEVVDLNEPSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQN 168
PS +S+ +Q+ + + + P+G K + I+++ N
Sbjct: 334 VPSPMLSIS-NLTQEQVQDYVNKTNSHLPAG------KQVE----------ISLV----N 372
Query: 169 GRD---------------THMRQIKVYSPVQQH--PSTMFTTVECQQVSVRAGTNF---- 207
G +R+ K S + Q P F+ + ++ F
Sbjct: 373 GAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP---FS-----ERKLKFSNRFLPVA 424
Query: 208 ----------------NDLQEIEVV----DLNEPSGWVKIPIKDIHD-KPIRTY--MI-- 242
DL + V D+ +IP+ D D +R I
Sbjct: 425 SPFHSHLLVPASDLINKDLVKNNVSFNAKDI-------QIPVYDTFDGSDLRVLSGSISE 477
Query: 243 ----QIAVMSNH----QNGRDTHM 258
I + + TH+
Sbjct: 478 RIVDCIIRLPVKWETTTQFKATHI 501
>1k3i_A Galactose oxidase precursor; blade beta propeller, prosequence
form, precursor of copper enzyme., oxidoreductase; 1.40A
{Fusarium SP} SCOP: b.1.18.2 b.18.1.1 b.69.1.1 PDB:
1gof_A 1gog_A 1goh_A 2eie_A 2jkx_A 2vz1_A 2vz3_A 2eic_A
2eib_A 1t2x_A 2eid_A 2wq8_A
Length = 656
Score = 35.7 bits (81), Expect = 0.018
Identities = 22/173 (12%), Positives = 46/173 (26%), Gaps = 16/173 (9%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQS------DGQLPHLVNVQFRRKTTVQDICIYRQLPHLV 85
S + G ++ D DT+W + D + PH + + V + + +
Sbjct: 36 DSAQSGNECNKAIDGNKDTFWHTFYGANGDPKPPHTYTIDMKTTQNVNGLSMLPRQDGNQ 95
Query: 86 NVQFRRKTTVQDICIYTDYKLDESYTPSRVSVRAGTNFNDLQEIEVVDLNEPSGWVKIPI 145
N + +Y +P V +G+ F D P+ +V++
Sbjct: 96 NG------WIGRHEVYLSSDGTNWGSP----VASGSWFADSTTKYSNFETRPARYVRLVA 145
Query: 146 KDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQHPSTMFTTVECQQ 198
+ T + +I V +
Sbjct: 146 ITEANGQPWTSIAEINVFQASSYTAPQPGLGRWGPTIDLPIVPAAAAIEPTSG 198
>1tvg_A LOC51668 protein; cell cycle, structural genomics, PSI, protein
structure initiative, northeast structural genomics
consortium, NESG; 1.60A {Homo sapiens} SCOP: b.18.1.9
PDB: 1xpw_A
Length = 153
Score = 30.5 bits (68), Expect = 0.36
Identities = 8/47 (17%), Positives = 19/47 (40%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQSDGQLPHLVNVQFRRKTTVQDICIY 78
+S + + D +T+W + G P + F + ++ + I
Sbjct: 29 TSSDEKHPPENIIDGNPETFWTTTGMFPQEFIICFHKHVRIERLVIQ 75
>3eyp_A Putative alpha-L-fucosidase; structural genomics, hydrolase,
lipoprotein, PSI-2, protein initiative; 1.90A
{Bacteroides thetaiotaomicron}
Length = 469
Score = 31.1 bits (70), Expect = 0.40
Identities = 6/79 (7%), Positives = 25/79 (31%), Gaps = 11/79 (13%)
Query: 10 DPVMEERLGRIRE----------VGSQAIWSLSSCKPGFGVDQLRDDCMDTYWQS-DGQL 58
+++ + + + + + +++ D+ +TY+ DG++
Sbjct: 305 HSTDSLHAALLKQGIDETFSTNLLRGAKVKATNVRGAKYSPEKMLDNEKNTYFAGKDGEV 364
Query: 59 PHLVNVQFRRKTTVQDICI 77
+ + + I
Sbjct: 365 KADIIFTLPKTIEFDCLMI 383
>2yc2_A IFT25, intraflagellar transport protein 25; transport protein,
cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii}
PDB: 2yc4_A
Length = 139
Score = 29.4 bits (65), Expect = 0.62
Identities = 9/46 (19%), Positives = 16/46 (34%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQSDGQLPHLVNVQFRRKTTVQDICI 77
S F + + D +T+W + G P ++ V I
Sbjct: 21 SCSDERFPPENMLDGKDNTFWVTTGMFPQEFVLRLESCIRVSKITT 66
>3i6s_A Subtilisin-like protease; PA-domain, FN3-domain, hydrolase; HET:
NAG FUC; 2.50A {Solanum lycopersicum} PDB: 3i74_A*
Length = 649
Score = 29.3 bits (65), Expect = 1.4
Identities = 24/114 (21%), Positives = 38/114 (33%), Gaps = 14/114 (12%)
Query: 31 LSSCKPGFGVDQLRDDCMDTYWQSDGQLPHLVNVQFRRKTTVQD-----ICIYRQL-PHL 84
L + P + +R M T D + + + T D + R L P L
Sbjct: 439 LKAAHPEWSPSAIRSAMMTTADPLDNTRKPIKDSDNNKAATPLDMGAGHVDPNRALDPGL 498
Query: 85 VNVQFRRKTTVQDICIYTDYKLDESYTPSRVSVRAGTNFNDLQEIEVVDLNEPS 138
V T QD Y + ++T + A ++ + DLN PS
Sbjct: 499 VY-----DATPQD---YVNLLCSLNFTEEQFKTIARSSASHNCSNPSADLNYPS 544
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 1.5
Identities = 5/21 (23%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 176 QIKVYSPVQQHPS-TMFTTVE 195
+K+Y+ P+ + T+E
Sbjct: 28 SLKLYAD-DSAPALAIKATME 47
Score = 28.8 bits (63), Expect = 1.5
Identities = 5/21 (23%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 260 QIKVYSPVQQHPS-TMFTTVE 279
+K+Y+ P+ + T+E
Sbjct: 28 SLKLYAD-DSAPALAIKATME 47
>2qbx_A Ephrin type-B receptor 2; receptor tyrosine kinase, BI-directional
signaling, tumorigenesis, angiogenesis, signaling
protein, structural genomics; 2.30A {Homo sapiens}
Length = 208
Score = 28.1 bits (62), Expect = 2.5
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 2/69 (2%)
Query: 137 PSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQHPSTMFTTVEC 196
PSGW ++ D + IRTY + S+ N T I+ + H F+ +C
Sbjct: 52 PSGWEEVSGYDENMNTIRTYQVCNVFESSQNNWLRTKF--IRRRGAHRIHVEMKFSVRDC 109
Query: 197 QQVSVRAGT 205
+ G+
Sbjct: 110 SSIPSVPGS 118
Score = 27.3 bits (60), Expect = 4.5
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 221 PSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQN 252
PSGW ++ D + IRTY + V + QN
Sbjct: 52 PSGWEEVSGYDENMNTIRTYQV-CNVFESSQN 82
>3etp_A Ephrin type-B receptor 2; EPH receptor, tyrosine kinase,
alternative splicing, ATP- binding, glycoprotein,
kinase, membrane, nucleotide- binding; 2.00A {Mus
musculus} PDB: 1nuk_A 1kgy_A 1shw_B*
Length = 187
Score = 28.1 bits (62), Expect = 2.8
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 2/69 (2%)
Query: 137 PSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQHPSTMFTTVEC 196
PSGW ++ D + IRTY + S+ N T I+ + H F+ +C
Sbjct: 28 PSGWEEVSGYDENMNTIRTYQVCNVFESSQNNWLRTKF--IRRRGAHRIHVEMKFSVRDC 85
Query: 197 QQVSVRAGT 205
+ G+
Sbjct: 86 SSIPSVPGS 94
Score = 26.9 bits (59), Expect = 5.8
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 2/60 (3%)
Query: 221 PSGWVKIPIKDIHDKPIRTYMIQIAVMSNHQNGRDTHMRQIKVYSPVQQHPSTMFTTVEC 280
PSGW ++ D + IRTY + S+ N T I+ + H F+ +C
Sbjct: 28 PSGWEEVSGYDENMNTIRTYQVCNVFESSQNNWLRTKF--IRRRGAHRIHVEMKFSVRDC 85
>3das_A Putative oxidoreductase; aldose sugar dehydrogenase, beta
propellor, PQQ, SGDH; HET: MSE ARA PQQ; 1.60A
{Streptomyces coelicolor}
Length = 347
Score = 28.1 bits (63), Expect = 3.7
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 3 SKDIFEKDPVMEERLGRIREV---GSQAIWSLSSCKPGFGVDQLRDD 46
+ + +E GR+R V G +W ++S G G + DD
Sbjct: 293 TAAAADPQAFLEGEYGRLRTVAPAGGDKLWLVTSNTDGRGDAKGGDD 339
>3hnm_A Putative chitobiase; PSI-2, protein structure initiative, northeast
structural genomics consortium, NESG, BTR319D.BT_411;
3.00A {Bacteroides thetaiotaomicron}
Length = 172
Score = 27.2 bits (60), Expect = 4.3
Identities = 11/75 (14%), Positives = 21/75 (28%), Gaps = 7/75 (9%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQSD----GQLPHLVNVQFRRKTTVQDICIYRQLPHLVNV 87
G+GV+ L D+ T W LP+ ++ T+ +
Sbjct: 33 WYLNMGWGVESLIDNNPGTQWLCRWDVKEPLPYYFVFDMGKEYTLFRFGFA---NPVAPA 89
Query: 88 QFRRKTTVQDICIYT 102
T + +
Sbjct: 90 AHVWAGTSKAGYVEA 104
>3cdx_A Succinylglutamatedesuccinylase/aspartoacylase; structural genomics,
PSI-2, protein structure initiative; 2.10A {Rhodobacter
sphaeroides 2}
Length = 354
Score = 27.5 bits (60), Expect = 4.8
Identities = 12/67 (17%), Positives = 24/67 (35%), Gaps = 5/67 (7%)
Query: 187 PSTMFTTVECQQVSVRAGTNFNDLQEIEVVDLNEPSGWVKIPIKDIHDKPIRTYMIQIAV 246
S + ++ + +AG + N G V+IPI + + T ++ V
Sbjct: 8 KSRIACDIDFDRDGRQAGY-----ARAPLSRNNSGWGTVEIPITVVKNGSGPTVLLTGGV 62
Query: 247 MSNHQNG 253
+ G
Sbjct: 63 HGDEYEG 69
>3na6_A Succinylglutamate desuccinylase/aspartoacylase; structural
genomics, joint center for structural genomics, J
protein structure initiative, PSI-2; HET: MSE; 2.00A
{Ruegeria SP}
Length = 331
Score = 27.5 bits (60), Expect = 5.0
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 186 HPSTMFTTVECQQVSVRAGTNFNDLQEIEVVDLNEPSGWVKIPIKDIHDKPIRTYMIQIA 245
+ + T+ Q V G ++ + G V IPI I + +T ++ A
Sbjct: 3 KDNPISPTIPLDQDGVHHGF-----LKLPYSRDDSAWGSVMIPITVIQNGAGKTALLTGA 57
Query: 246 VMSNHQNG 253
+ G
Sbjct: 58 NHGDEYEG 65
>4a3z_A GH89_CBM32, alpha-N-acetylglucosaminidase family protein;
hydrolase, family 32 carbohydrate-binding module; HET:
MSE; 1.55A {Clostridium perfringens} PDB: 4a6o_A*
Length = 161
Score = 26.8 bits (59), Expect = 5.8
Identities = 8/48 (16%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQS-DGQLPHLVNVQFRRKTTVQDICIY 78
S+ + G + + D + + W S +G +P + V + ++
Sbjct: 38 SNSQSGNPLSNITDGDLSSLWISDNGAMPANATIDLEGNNFVDFLELH 85
>4a42_A GH89_CBM32-4, alpha-N-acetylglucosaminidase family protein;
hydrolase, family 89 glycoside hydrolase, family 32
carbohyd binding module; HET: MSE; 1.55A {Clostridium
perfringens}
Length = 149
Score = 26.7 bits (59), Expect = 7.0
Identities = 8/47 (17%), Positives = 14/47 (29%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQSDGQLPHLVNVQFRRKTTVQDICIY 78
+ LRD +T W + V ++ + I I
Sbjct: 35 EVTSNNSEANNLRDGNENTLWVPGQEEEKSVTFDLSKEKDISAIDIV 81
>2v72_A CBM32, EXO-alpha-sialidase; galactose, bacterial pathogen,
carbohydrate-binding module, sugar-binding protein;
HET: GAL; 2.25A {Clostridium perfringens}
Length = 143
Score = 26.4 bits (58), Expect = 8.0
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 32 SSCKPGFGVDQLRDDCMDTYWQS----DGQLPHLVNVQFRRKTTVQDICIY 78
+S + D ++T W + LP ++V + V I I
Sbjct: 21 TSEEGQDPASSAIDGNINTMWHTKWNGSDALPQSLSVNLGKARKVSSIAIT 71
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
0.321 0.134 0.407
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,427,839
Number of extensions: 254222
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 365
Number of HSP's successfully gapped: 32
Length of query: 287
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 194
Effective length of database: 4,105,140
Effective search space: 796397160
Effective search space used: 796397160
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: 57 (25.9 bits)