RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11709
(474 letters)
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix
motif, developmental protein, phosphoprotein; 1.50A
{Arabidopsis thaliana}
Length = 169
Score = 92.7 bits (230), Expect = 3e-22
Identities = 32/145 (22%), Positives = 62/145 (42%), Gaps = 12/145 (8%)
Query: 204 KVMIELLSTYTAENASQAREDAQACILAALADPNTFLLHPLLTLKPVKFLEG---ELIHD 260
+ E++ ++ E I+ A + P+ F +L L V LEG + D
Sbjct: 5 QKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSVYLD 64
Query: 261 LLNIFVAEKVNTYQDFYKQHKEYIVNKLGLDHQENLRKMRLLTFMQLAETKTEMSFDMIQ 320
LL +F Y+ + + + K++ LT + LAE+ + +D +
Sbjct: 65 LLRLFAHGTWGDYKCNATRLPHL--------SPDQILKLKQLTVLTLAESNKVLPYDTLM 116
Query: 321 KELDL-NPNQIEAFIIDGKIAAKVM 344
ELD+ N ++E F+I+ + A ++
Sbjct: 117 VELDVSNVRELEDFLINECMYAGIV 141
Score = 92.3 bits (229), Expect = 4e-22
Identities = 31/136 (22%), Positives = 57/136 (41%), Gaps = 12/136 (8%)
Query: 342 KVMIELLSTYTAENASQAREDAQACILAALADPNTFLLHPLLTLKPVKFLEG---ELIHD 398
+ E++ ++ E I+ A + P+ F +L L V LEG + D
Sbjct: 5 QKQAEIIDQLVKRASTCKSEALGPLIIEATSHPSLFAFSEILALPNVAQLEGTTDSVYLD 64
Query: 399 LLNIFVSEKVNTYQDFYKQHKEYIVNKLGLDHQENLRKMRLLTFMQLAETKTEMSFDMIQ 458
LL +F Y+ + + + K++ LT + LAE+ + +D +
Sbjct: 65 LLRLFAHGTWGDYKCNATRLPHL--------SPDQILKLKQLTVLTLAESNKVLPYDTLM 116
Query: 459 KELDL-NPNQIEAFII 473
ELD+ N ++E F+I
Sbjct: 117 VELDVSNVRELEDFLI 132
>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 = 60.6 bits (146), Expect = 7e-10
Identities = 90/590 (15%), Positives = 173/590 (29%), Gaps = 200/590 (33%)
Query: 9 PVFIDLLLEDQALELRVYLKNLGAEISDEKSTKGI--EDDLHKIIGVCDA---------C 57
VF D +++ + + ++ D K I ++++ II DA
Sbjct: 23 SVFEDAFVDN--FDCK--------DVQD--MPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 58 FQDANEAD----IESVLNS----IVSML--VLINPERAENLILAFSEKLSKASD--AKLG 105
E +E VL ++S + P + + ++L + AK
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY- 129
Query: 106 PVT-LRVLWLLFQSLEPTSPMRYHVYYH---------LVQIAQNADQIKSVFKDVDH-LK 154
V+ L+ L Q+L P + V + + +++ L
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKN-VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 155 QQFSQCPPSNEQMQKLLRLLHQA---------------------------LLASKQYR-- 185
C ++ L +LL+Q LL SK Y
Sbjct: 189 --LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246
Query: 186 LLRMQTKSSLCSKTELAA-----KVMIELLSTYTAENASQAREDAQACILAALADPNTFL 240
LL + ++ + A K+ LL+T R L+A + L
Sbjct: 247 LLVL---LNVQNAKAWNAFNLSCKI---LLTT---------RFKQVTDFLSAATTTHISL 291
Query: 241 LHPLLTLKP-------VKFLE---GEL------IHDL-LNIFVA---EKVNTYQDFYKQH 280
H +TL P +K+L+ +L + L+I + + T+ D +K
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW-DNWKH- 349
Query: 281 KEYIVNKLGLDHQENLRKMRLLTFMQLAETKTEMSFDMIQKELDLNPNQI----EAFII- 335
+KL T E S + L P + + +
Sbjct: 350 --VNCDKL--------------------TTIIESSLN------VLEPAEYRKMFDRLSVF 381
Query: 336 --DGKIAAKVMIELLSTYTAENASQAREDAQACILAALAD----PNTFLLHPLLTLKPVK 389
I ++ L+ + S +L + +T + + VK
Sbjct: 382 PPSAHIPTILL-SLI--WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438
Query: 390 FLEGELIHDLLNIFVSEKVNTYQ--------DFYKQHKE-YIVNKLG--LDHQENLRKMR 438
+H + V+ Y D + + Y + +G L + E+ +M
Sbjct: 439 LENEYALHRSI-------VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491
Query: 439 LLT-------FMQ-------LAETKTEMSFDMIQKELDLNPNQIEAFIID 474
L F++ A + + +Q L + +I D
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ---QL--KFYKPYICD 536
Score = 57.9 bits (139), Expect = 5e-09
Identities = 70/494 (14%), Positives = 130/494 (26%), Gaps = 173/494 (35%)
Query: 12 IDLLLEDQALELRVYLKNLGAEISDEKSTKG---IEDDLHKIIGVCDA---------C-- 57
I L + ELR LK K + + + V +A C
Sbjct: 223 IKLRIHSIQAELRRLLK--------SKPYENCLLVLLN------VQNAKAWNAFNLSCKI 268
Query: 58 ---FQDANEADIESVLN----SIVSMLVLINPERAENLILAFSEKLS-KASD-----AKL 104
+ D S S+ + + P+ ++L + L + D
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL---LLKYLDCRPQDLPREVLTT 325
Query: 105 GPVTLRVLWLLFQSLEPTSPMRYHVYYHLVQIAQNADQIKSVFK-DVDHLKQQFSQCPPS 163
P L ++ + + + H+ N D++ ++ + ++ L+ P+
Sbjct: 326 NPRRLSIIAESIRD----GLATWDNWKHV-----NCDKLTTIIESSLNVLE-------PA 369
Query: 164 NEQMQKLLRLLHQALLASKQYRLLRMQTKSSLCSKTELAAKVMIELLSTYTAENASQ-AR 222
+ K + L + S A + LLS +
Sbjct: 370 EYR---------------KMFDRLSVFPPS---------AHIPTILLSLIWFDVIKSDVM 405
Query: 223 EDAQACILAALA--DPNTFLLHPLLTLKPVKFLEGELIHDLLNIFVAEKVNTYQ------ 274
+L P + I + + N Y
Sbjct: 406 VVVNKLHKYSLVEKQPKESTIS---------------IPSIYLELKVKLENEYALHRSIV 450
Query: 275 DFYKQHKEYIVNKLGLDHQEN---------LRKMRLLTFMQLAETKTEMSFDMIQKELDL 325
D Y K + + L + + L+ ++ E T LD
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN------IEHPERMTLFR----MVFLDF 500
Query: 326 NPNQIEAFIIDGKIAAKVMIELLSTYTAENASQAREDAQACILAALADPNTFLLHPLLTL 385
F ++ KI TA NAS IL L + +
Sbjct: 501 R------F-LEQKIRH--------DSTAWNAS-------GSILNTLQQLKFYKPY----- 533
Query: 386 KPVKFLEGELIHDLLNIFVSEKVNTYQDFYKQHKEYIVNKLGLDHQENLRKMRLLTFMQL 445
I D + VN DF + +E ++ + + LR + M
Sbjct: 534 ----------ICDNDPKY-ERLVNAILDFLPKIEENLICS---KYTDLLR----IALMAE 575
Query: 446 AETKTEMSFDMIQK 459
E E + +Q+
Sbjct: 576 DEAIFEEAHKQVQR 589
>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 = 57.4 bits (138), Expect = 7e-09
Identities = 69/431 (16%), Positives = 127/431 (29%), Gaps = 140/431 (32%)
Query: 104 LGPVTLRVLWLLFQSLE-----PTSPMRYHVYYHLVQIAQNADQIKSVFKDVDHLKQQFS 158
+ + R L L SLE PT+ ++ A Q L++QF+
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTA-----SFFI-------ASQ----------LQEQFN 38
Query: 159 QC--PPSNEQMQKLLRLLHQALLASKQYRLLRMQTKSSLCSKTELAAKVMIELLSTYTAE 216
+ P+ A+ + + EL K + Y +
Sbjct: 39 KILPEPTEG-------------FAADD------EPTTPA----ELVGKFL-----GYVSS 70
Query: 217 NASQAREDAQACILAALADPNTFLLHPLLTLKPVKFLEGELIHDLLNIFVAEKVNTYQDF 276
++ +L F +LEG IH L + E T
Sbjct: 71 LVEPSKVGQFDQVLNLCL--TEFE---------NCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 277 YKQHKEYIVNKLGLDHQ-ENLRKMRLLTFMQLAETK----------TEMSFDMIQKEL-D 324
+ K YI ++ + L + + T+ F+ EL D
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE----ELRD 175
Query: 325 L----NPNQIEAFIIDGKIAAKVMIELLSTYTAENASQAREDAQAC-ILAALADPNT--- 376
L + + I K E LS + Q IL L +P+
Sbjct: 176 LYQTYHVL-VGDLI-------KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 377 --FLLH-----PLLTL---------------KPVKF---LEGELIH--DLLNIFVSEKVN 409
+LL PL+ + P + L+G H L+ + +
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD 287
Query: 410 TYQDFYKQHKEYIVN--KLGLDHQENLRKMRL-LTFMQLAETKTE--MSFDMIQKEL--- 461
+++ F+ ++ I +G+ E L + ++ + E S M L
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP-M----LSIS 342
Query: 462 DLNPNQIEAFI 472
+L Q++ ++
Sbjct: 343 NLTQEQVQDYV 353
>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI
topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB:
3lps_A*
Length = 408
Score = 29.8 bits (68), Expect = 2.0
Identities = 14/48 (29%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 190 QTKSSLCSKTELAA---KVMIELLSTYTAENASQAREDAQACILAALA 234
QTK L S + A + S Y +N + AQ I A A
Sbjct: 350 QTKERLSS-RQAAGFIEGAAHDAFSLYLNQNVEIGEKIAQIAIDRASA 396
>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with
ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3
d.122.1.2
Length = 390
Score = 29.7 bits (68), Expect = 2.0
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 190 QTKSSLCSKTELAA---KVMIELLSTYTAENASQAREDAQACILAALA 234
QTK L S + AA V+ + + +N A A+ I +A
Sbjct: 332 QTKERLSS-RQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQR 378
>2h2y_A Ubiquitin-conjugating enzyme; structural genomics, unknown
function, structural genomics consortium, SGC; 2.80A
{Plasmodium falciparum 3D7}
Length = 136
Score = 28.4 bits (64), Expect = 2.7
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 65 DIESVLNSIVSMLVLINPE 83
I ++ SI+SML +
Sbjct: 118 SISGLILSIISMLSSAKEK 136
>2fo3_A Ubiquitin-conjugating enzyme; SGC, UBC, structural genomics,
structural genomics consortium, unknown function; 1.86A
{Plasmodium vivax} SCOP: d.20.1.1
Length = 125
Score = 28.0 bits (63), Expect = 3.1
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 65 DIESVLNSIVSMLVLINPE 83
I ++ SI+SML +
Sbjct: 104 SISGLVLSIISMLSSAKEK 122
>2cv8_A TRNA-splicing endonuclease; tRNA-intron endonuclease, structural
genomics, NPPSFA; 2.80A {Sulfolobus tokodaii}
Length = 180
Score = 27.6 bits (61), Expect = 5.7
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 2/44 (4%)
Query: 90 LAFSEKLSKASDAKLGPVTLRVLWLLFQSLEPTSPMRYHVYYHL 133
L KL S+ + + L+ + + P + Y VY L
Sbjct: 56 LVKKGKLEIVSNGE--RLDFERLYQIGVTQIPRFRILYSVYEDL 97
>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein,
structural genomics, PSI- 2, protein structure
initiative; 3.00A {Corynebacterium diphtheriae}
Length = 583
Score = 28.0 bits (62), Expect = 7.6
Identities = 8/46 (17%), Positives = 18/46 (39%), Gaps = 6/46 (13%)
Query: 42 GIEDDLHKIIGVCDACFQDANEADIESVLNSIVSMLVLINPERAEN 87
GIED +IIG + + + + + + + + +R
Sbjct: 87 GIEDKTGRIIGT------ELDIDWLRQGIFTRIDVAPDVVAKRVLG 126
>1x9n_A DNA ligase I; 5'-adenylated nicked DNA, protein-DNA complex, L
complex; HET: DNA DOC AMP; 3.00A {Homo sapiens} SCOP:
a.235.1.1 b.40.4.6 d.142.2.1
Length = 688
Score = 28.0 bits (62), Expect = 8.6
Identities = 51/345 (14%), Positives = 102/345 (29%), Gaps = 52/345 (15%)
Query: 32 AEISDEKSTKGIEDDLHKIIGVCDACFQDANEADIESVLNSIVSMLVLINPER------- 84
+I + + +++ + +L + L + P +
Sbjct: 66 EKIEEVSARL-------RMVETLSNLLRSVVALSPPDLLPVLYLSLNHLGPPQQGLELGV 118
Query: 85 AENLIL------------AFSEKLSKASDAKLGPVTLRVLWLLFQSLEPTSPMRYHVYYH 132
+ ++L + + ++ D +G V L P V+
Sbjct: 119 GDGVLLKAVAQATGRQLESVRAEAAEKGD--VGLVAENSRSTQRLMLPPPPLTASGVFSK 176
Query: 133 LVQIAQNADQIKSVFKDVDHLKQQFSQCPPSNEQMQKLLRLLHQAL----------LASK 182
IA+ S K +D +K F C +E + R L L A
Sbjct: 177 FRDIARLTGS-ASTAKKIDIIKGLFVACRH-SEAR-FIARSLSGRLRLGLAEQSVLAALS 233
Query: 183 QYRLLRMQTKSSLCSKTELAAKVMIELLSTYTAENASQAREDAQAC-----ILAALADPN 237
Q L + + + E T+ E ++ I+ L +
Sbjct: 234 QAVSLTPPGQEFPPAMVDAGKGKTAEARKTWLEEQGMILKQTFCEVPDLDRIIPVLLEHG 293
Query: 238 TFLLHPLLTLKPVKFLEGELIHDLLNIFVAEKVNTYQDFYKQHK-EYIVNKLGLDHQENL 296
L L P L+ L H I K F ++K + ++ H
Sbjct: 294 LERLPEHCKLSPGIPLKPMLAHPTRGISEVLKRFEEAAFTCEYKYDGQRAQI---HALEG 350
Query: 297 RKMRLLTFMQLAETKTEMSFDMIQKELDLNPNQIEAFIIDGKIAA 341
++++ F + E T D+I + + + +FI+D + A
Sbjct: 351 GEVKI--FSRNQEDNTGKYPDIISRIPKIKLPSVTSFILDTEAVA 393
>1vhx_A Putative holliday junction resolvase; structural genomics,
hydrolase; 1.96A {Bacillus subtilis} SCOP: c.55.3.8
Length = 150
Score = 26.8 bits (60), Expect = 9.9
Identities = 6/39 (15%), Positives = 14/39 (35%)
Query: 232 ALADPNTFLLHPLLTLKPVKFLEGELIHDLLNIFVAEKV 270
AL+D + + T+K + + L + +
Sbjct: 18 ALSDEMGWTAQGIETIKINEAEGDYGLSRLSELIKDYTI 56
>2e2c_A Ubiquitin conjugating enzyme; ubiquitin conjugation, ubiquitin
carrier protein, thioester ligase; 2.00A {Spisula
solidissima} SCOP: d.20.1.1
Length = 156
Score = 26.8 bits (60), Expect = 9.9
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 65 DIESVLNSIVSMLVLINPE 83
D+ ++L S+ S+L N
Sbjct: 106 DVRTILLSLQSLLGEPNNA 124
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
0.320 0.134 0.373
Gapped
Lambda K H
0.267 0.0455 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,935,411
Number of extensions: 413091
Number of successful extensions: 1312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1295
Number of HSP's successfully gapped: 28
Length of query: 474
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 377
Effective length of database: 3,993,456
Effective search space: 1505532912
Effective search space used: 1505532912
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 (21.8 bits)
S2: 59 (27.2 bits)