RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6731
(258 letters)
>3rii_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; alpha-beta-alpha
fold, thiol hydroalse, cysteine protease,
deubiquitinating enzyme; 2.00A {Homo sapiens} PDB:
3ris_A 3sqa_A 3tb3_A 3a7s_A
Length = 233
Score = 180 bits (458), Expect = 7e-57
Identities = 103/148 (69%), Positives = 120/148 (81%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 8 GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 67
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 68 EPAGSVVQDSRLDTIFFAKQVINNASATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 127
Query: 122 PTMKGYALSNSQPIRTVHNSFARYSSEE 149
MKG ALSNS IR VHNSFAR E
Sbjct: 128 AAMKGLALSNSDVIRQVHNSFARQQMFE 155
Score = 34.3 bits (78), Expect = 0.021
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 142 FARYSSEEIRFNLLAVVCDKK 162
+YS EIRFNL+A+V D+K
Sbjct: 213 IQKYSEGEIRFNLMAIVSDRK 233
>3ihr_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; center for
eukaryotic structural genomics, UCH37, UCH-L5, ubiquitin
hydrolase, proteasome, INO80; 2.95A {Homo sapiens}
Length = 328
Score = 175 bits (445), Expect = 1e-53
Identities = 104/148 (70%), Positives = 121/148 (81%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 3 GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 63 EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122
Query: 122 PTMKGYALSNSQPIRTVHNSFARYSSEE 149
MKG ALSNS IR VHNSFAR E
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFARQQMFE 150
Score = 102 bits (254), Expect = 1e-25
Identities = 57/118 (48%), Positives = 79/118 (66%), Gaps = 4/118 (3%)
Query: 142 FARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKT----AKQNEVVQLK 197
+YS EIRFNL+A+V D+KM YE+++A + L + +D A Q+EV + +
Sbjct: 208 IQKYSEGEIRFNLMAIVSDRKMIYEQKIAELQRQLAEEPMDTDQGNSMLSAIQSEVAKNQ 267
Query: 198 ILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQKAVELNSSKKEK 255
+LIEEE KL+ Y+IENIRRKHNYLP IM LLK LA+ QL+ L +KA E ++KK +
Sbjct: 268 MLIEEEVQKLKRYKIENIRRKHNYLPFIMELLKTLAEHQQLIPLVEKAKEKQNAKKAQ 325
>2wdt_A Ubiquitin carboxyl-terminal hydrolase L3; hydrolase-protein binding
complex, enzyme-ligand complex, UB isopeptidase, UCH-L
superfamily, cystein proteinase, peptid hydrolase; 2.30A
{Plasmodium falciparum} PDB: 2we6_A
Length = 232
Score = 165 bits (419), Expect = 7e-51
Identities = 33/153 (21%), Positives = 65/153 (42%), Gaps = 6/153 (3%)
Query: 1 MSDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKIL-QPVHGLIFLFKLRE 59
M+ W +ES+P G ++ +++ + L ++ QPV +IFL+ + +
Sbjct: 1 MAKNDIWTPLESNPDSLYLYSCKLGQSKLKFVDIYGFNNDLLDMIPQPVQAVIFLYPVND 60
Query: 60 DTE----PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTEFK 114
+ + ++F KQ + N+C T A+L + N + E+ SVL +F
Sbjct: 61 NIVSENNTNDKHNLKENFDNVWFIKQYIPNSCGTIALLHLYGNLRNKFELDKDSVLDDFF 120
Query: 115 DFCQSFDPTMKGYALSNSQPIRTVHNSFARYSS 147
+ +G L N++ I +H+ F
Sbjct: 121 NKVNEMSAEKRGQELKNNKSIENLHHEFCGQVE 153
Score = 33.9 bits (77), Expect = 0.033
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 142 FARYSSEEIRFNLLAVVCDKKM 163
F +++RF+ LAV+ +
Sbjct: 208 FIEKCKDDLRFSALAVIPNDNF 229
>1cmx_A Protein (ubiquitin YUH1-UBAL); ubiquitin hydrolase,
deubiquitinating enzyme, cysteine protease, enzyme
specificity; 2.25A {Synthetic} SCOP: d.3.1.6
Length = 235
Score = 154 bits (391), Expect = 9e-47
Identities = 41/154 (26%), Positives = 65/154 (42%), Gaps = 7/154 (4%)
Query: 1 MS-DAGNWCLIESDPGVFTELIRGFGVQGVQVE-ELWSLEPENL--KILQPVHGLIFLFK 56
MS + IES+P VFT G++ +++SL L + +PV ++ LF
Sbjct: 1 MSGENRAVVPIESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFP 60
Query: 57 LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEF-KD 115
+ ED + + S S + + KQ V NAC AIL L NN ++ GS L F K
Sbjct: 61 INEDRKSSTSQQITSS-YDVIWFKQSVKNACGLYAILHSLSNNQS-LLEPGSDLDNFLKS 118
Query: 116 FCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
+ + ++ Q + V + S
Sbjct: 119 QSDTSSSKNRFDDVTTDQFVLNVIKENVQTFSTG 152
>1xd3_A Ubiquitin carboxyl-terminal esterase L3; enzyme-ligand complex,
active site crossover loop, hydrolase; HET: GVE; 1.45A
{Homo sapiens} SCOP: d.3.1.6 PDB: 1uch_A*
Length = 230
Score = 150 bits (379), Expect = 5e-45
Identities = 37/152 (24%), Positives = 70/152 (46%), Gaps = 10/152 (6%)
Query: 3 DAGNWCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLKIL-QPVHGLIFLFKL--- 57
+ W +E++P V + ++ G+ Q +++ ++PE L ++ +PV ++ LF +
Sbjct: 2 EGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEK 61
Query: 58 ----REDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSD-PEVKLGSVLTE 112
R + E +++F KQ ++NAC T ++ + NN D + GS L +
Sbjct: 62 YEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKK 121
Query: 113 FKDFCQSFDPTMKGYALSNSQPIRTVHNSFAR 144
F + S P + L N IR H + A
Sbjct: 122 FLEESVSMSPEERARYLENYDAIRVTHETSAH 153
>4dm9_A Ubiquitin carboxyl-terminal hydrolase isozyme L1; ubiquitin
hydrolase, ligase, hydrolase, ligase-inhibitor COM; HET:
PHQ GME; 2.35A {Homo sapiens} PDB: 3kw5_A 2etl_A* 3irt_A
3kvf_A 3ifw_A
Length = 228
Score = 148 bits (375), Expect = 2e-44
Identities = 33/156 (21%), Positives = 64/156 (41%), Gaps = 8/156 (5%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGV-QVEELWSLEPENLKIL-QPVHGLIFLFKLRE 59
+ +E +P + +++ GV G + ++ LE E+L + P L+ LF L
Sbjct: 3 LGSMQLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTA 62
Query: 60 DTE-----PAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEF 113
E + ++F KQ + N+C T ++ + NN D + GSVL +F
Sbjct: 63 QHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQF 122
Query: 114 KDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
+ P + ++ I+ H++ A+
Sbjct: 123 LSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCR 158
Score = 28.2 bits (62), Expect = 2.1
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 142 FARYSSEEIRFNLLAVV 158
F E+RF+ +A+
Sbjct: 209 FTEREQGEVRFSAVALC 225
>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 = 41.2 bits (96), Expect = 2e-04
Identities = 42/302 (13%), Positives = 88/302 (29%), Gaps = 118/302 (39%)
Query: 27 QGVQ--------------VEELW------SLEPENLKILQPVHG----LIFLF------K 56
QG Q +++W + IL V L F +
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 57 LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDF 116
+RE+ +++ ++ ++ +++ + S + L T+F
Sbjct: 1684 IRENYS---AMIFETIVDGKLKTEKIFKEI--NEHSTSYTFR--SEKGLLS--ATQF--- 1731
Query: 117 CQSFDPTMKGYALSNSQP-IRTVHNSFARYSSEEIR----FNLLAVVC-----DKKMKYE 166
T QP + + A + E+++ A
Sbjct: 1732 ------T---------QPALTLM--EKAAF--EDLKSKGLIPADATFAGHSLG------- 1765
Query: 167 KE---LAAATQALKDPSLDAATKT------AKQNEV-----------------VQLKILI 200
E LA+ + S+++ + Q V ++
Sbjct: 1766 -EYAALASLADVM---SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF 1821
Query: 201 EEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQ----GQLVNLYQKAVE-LNSSKKEK 255
+EA + Y +E + ++ +L I+N + +Q G L L LN K +K
Sbjct: 1822 SQEALQ---YVVERVGKRTGWLVEIVNY-NVENQQYVAAGDLRAL-DTVTNVLNFIKLQK 1876
Query: 256 VK 257
+
Sbjct: 1877 ID 1878
Score = 33.1 bits (75), Expect = 0.11
Identities = 39/262 (14%), Positives = 82/262 (31%), Gaps = 83/262 (31%)
Query: 9 LIESDPGVFTELIRGFGVQGVQ----------VEELWSLEPENLKILQPVH----GLIF- 53
++ ++P L FG + + E + + + KI + ++ F
Sbjct: 1664 IVINNP---VNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 54 ----LFKLREDTEPA-----GSIVQDSRLETIFFAKQVV-------NNACATQA-ILSIL 96
L + T+PA + +D + + + A A A+ A ++SI
Sbjct: 1721 SEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSI- 1779
Query: 97 LNNSDPEVKL----GSVLTEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRF 152
V++ G + + Y + P R A +S E +++
Sbjct: 1780 ---ES-LVEVVFYRGMTMQVA---VPRDELGRSNYGMIAINPGRVA----ASFSQEALQY 1828
Query: 153 NLLAVVCDKKMKYEKEL---------------AAATQALKDPSLDAATKTAKQNEVVQLK 197
V ++ K L A +AL D T ++ ++
Sbjct: 1829 -----VVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL-----DTVTNVLNFIKLQKID 1878
Query: 198 ILIEEEAAKL-ESYRIENIRRK 218
I+ +L +S +E +
Sbjct: 1879 II------ELQKSLSLEEVEGH 1894
>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 = 41.0 bits (95), Expect = 3e-04
Identities = 45/312 (14%), Positives = 90/312 (28%), Gaps = 83/312 (26%)
Query: 1 MSDAGNWCLIES---DPGVFTELIRGFGVQGVQVEELW-SL----EPEN-LKILQPV-HG 50
+ +G + V + F + W +L PE L++LQ + +
Sbjct: 158 VLGSGKTWVALDVCLSYKV--QCKMDFKI-------FWLNLKNCNSPETVLEMLQKLLYQ 208
Query: 51 LIFLFKLREDTEPAGSIVQDS---RLETIFFAKQVVNNACATQAILSILLNNSDPEV--- 104
+ + R D + S L + +K N C L +LLN + +
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN--C-----LLVLLNVQNAKAWNA 261
Query: 105 -KLGS---VLTEFKDFCQSFDP-TMKGYALSNSQPIRTVHNS---FARY--------SSE 148
L + T FK T +L + T +Y E
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 149 EIRFNLLAV-VCDKKMK--------YEKELAAATQALKDPSLDAATKTAKQNEVVQLKIL 199
+ N + + + ++ ++ + + SL+ + +L +
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381
Query: 200 ----------------------IEEEAAKLESYRIENIRRKHN--YLPLIMNLLKLLAKQ 235
+ KL Y + + K + +P I L+L K
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI--YLELKVKL 439
Query: 236 GQLVNLYQKAVE 247
L++ V+
Sbjct: 440 ENEYALHRSIVD 451
Score = 39.1 bits (90), Expect = 0.001
Identities = 45/258 (17%), Positives = 88/258 (34%), Gaps = 68/258 (26%)
Query: 6 NWCLIESDPGVFTELIRGFGVQGVQVEELWSLE-----------PENLKILQPVHGLIFL 54
NW + D T +I + L E P + I + LI+
Sbjct: 346 NWKHVNCDK--LTTIIESS------LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF 397
Query: 55 FKLREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFK 114
++ D +V ++ KQ + + +I L + E L + +
Sbjct: 398 DVIKSDVM---VVVNKLHKYSLV-EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 115 DFCQSFDPTMK-------------GYALSNSQPI------RTVHNSFARYSSEEIR---- 151
+ ++FD G+ L N + R V F R+ ++IR
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF-RFLEQKIRHDST 512
Query: 152 --------FNLLAV-------VCDKKMKYEKELAAATQALKD--PSLDAATKTAKQNEVV 194
N L +CD KYE+ + A+ D P ++ +K +++
Sbjct: 513 AWNASGSILNTLQQLKFYKPYICDNDPKYERLV----NAILDFLPKIEENLICSKYTDLL 568
Query: 195 QLKILIEEEAAKLESYRI 212
++ ++ E+EA E+++
Sbjct: 569 RIALMAEDEAIFEEAHKQ 586
Score = 35.2 bits (80), Expect = 0.021
Identities = 29/169 (17%), Positives = 55/169 (32%), Gaps = 47/169 (27%)
Query: 90 QAILSILLNN--SDPEVK-----LGSVLT--EFKDFCQSFDPTMKGYALSN---SQPIRT 137
+ ILS+ + + + K S+L+ E S D L S+
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 138 VHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNEVVQLK 197
V ++ E +R N Y+ ++ + PS+
Sbjct: 79 V----QKFVEEVLRIN-----------YKFLMSPIKTEQRQPSMM--------------T 109
Query: 198 ILIEEEAAKL----ESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLY 242
+ E+ +L + + N+ R YL L LL+L + + V +
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL--RPAKNVLID 156
>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics,
PSI-2, protein structure initiative; 2.80A {Salinibacter
ruber} PDB: 2kcl_A 2kcv_A
Length = 100
Score = 29.9 bits (68), Expect = 0.21
Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 6/56 (10%)
Query: 202 EEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQL---VNLYQKAVELNSSKKE 254
A L + E + +Y+ +L KL + + ++ Y + +E+ +
Sbjct: 24 SRA--LALFE-ELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGT 76
>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 = 30.3 bits (67), Expect = 0.36
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 15/45 (33%)
Query: 30 QVEELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSRLE 74
+ + L L+ +LK+ D+ PA +I + +E
Sbjct: 18 EKQALKKLQ-ASLKLYAD------------DSAPALAI--KATME 47
>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase
110; OGT, glcnac, nucleoporin, O-linked glycosylation,
TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP:
a.118.8.1
Length = 388
Score = 29.8 bits (68), Expect = 0.94
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 8/101 (7%)
Query: 152 FNLLAVVCDKKMKYEKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYR 211
LL+ + + + ++ +T A+K L A + N + L +EA +E YR
Sbjct: 36 LLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL--QEA--IEHYR 91
Query: 212 IENIRRKHNYLPLIMNLLKLLAKQGQL---VNLYQKAVELN 249
+R K +++ +NL L G + V Y A++ N
Sbjct: 92 -HALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN 131
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.5 bits (63), Expect = 1.6
Identities = 18/120 (15%), Positives = 40/120 (33%), Gaps = 31/120 (25%)
Query: 25 GVQG--VQVE-----ELWSLEPENLKILQPVHGLIFLFKLREDTEPAGSIVQDSR-L--- 73
G G +QV + S++ ++ + P+ ++ +L + + + L
Sbjct: 114 GSVGMAIQVNYSSEVKENSVDSDDKAKVPPLIRIVSGLELSDTKQK------GKKFLVIA 167
Query: 74 ----ETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFDPTMKGYAL 129
E I ++ N IL + ++ + E C +D K Y +
Sbjct: 168 YEPFENIAI--ELPPN--------EILFSENNDMDNNNDGVDELNKKCTFWDAISKLYYV 217
>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin
ligase; 2.60A {Schizosaccharomyces pombe}
Length = 597
Score = 28.3 bits (63), Expect = 2.6
Identities = 23/141 (16%), Positives = 49/141 (34%), Gaps = 9/141 (6%)
Query: 115 DFCQSFDPTMKGYALSNSQPIRTV-HNSFARYSSEEIRF-NLLAVVCDKKMKYEKELAAA 172
++FD + + L+ + V +++ YS E+ F L ++ K +E EL A
Sbjct: 232 KCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRA 291
Query: 173 TQALKDPSLDAATKTAKQNEVVQLKILIE-EEAAKLESYRIENIRRKHNYLPLIMNLLKL 231
L + + + L + + L + + L + L
Sbjct: 292 EDYLSSINGLEKSSDLLLCKADTLFVRSRFIDV--LAITT-KILEIDPYNLDVYPLHLAS 348
Query: 232 LAKQGQ---LVNLYQKAVELN 249
L + G+ L + V+ +
Sbjct: 349 LHESGEKNKLYLISNDLVDRH 369
>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria
translocation, allosteric REG phosphoprotein, TPR
repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae}
PDB: 3fp3_A 3fp4_A 3lca_A
Length = 537
Score = 28.1 bits (63), Expect = 3.4
Identities = 10/121 (8%), Positives = 36/121 (29%), Gaps = 18/121 (14%)
Query: 152 FNLLAVVCDKKMKYEKELAAATQALK-DPSLDAA------------TKTAKQNEVVQLKI 198
A + + ++ + A + + + + ++
Sbjct: 381 PTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLD 440
Query: 199 LIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQL---VNLYQKAVELNSSKKEK 255
+ AA ++ + + L +L + ++ + L++ + L + EK
Sbjct: 441 EEKFNAA-IKLLT-KACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEK 498
Query: 256 V 256
+
Sbjct: 499 L 499
>2p3p_A Hypothetical protein; MCSG, MAD, PSI-2, structure genomics,
singleton, PG_1388, structural genomics, protein
structure initiative; 1.76A {Porphyromonas gingivalis
W83} SCOP: d.383.1.1
Length = 207
Score = 27.1 bits (59), Expect = 4.9
Identities = 7/56 (12%), Positives = 19/56 (33%)
Query: 111 TEFKDFCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYE 166
++ S P+ +LS ++ + +EE + + + + Y
Sbjct: 141 YAYQAIYASLTPSYMQVSLSEESDTLSIRQTVTETLAEEEKPLAAIFLSPEPLVYR 196
>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein
structure initiative, northeast structural genomics
consortium, NESG; 2.28A {Cytophaga hutchinsonii}
Length = 272
Score = 27.2 bits (61), Expect = 5.4
Identities = 15/118 (12%), Positives = 36/118 (30%), Gaps = 20/118 (16%)
Query: 147 SEEIRFNLLAVVCDKKMKYEKELAAATQALK-DPSLDAA------TKTAKQNEVVQLKIL 199
++++ F A K Y + + + +
Sbjct: 2 NDDVEFRY-ADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAK-------- 52
Query: 200 IEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQL---VNLYQKAVELNSSKKE 254
+ +E+Y + K+L K+GQ + YQ AV+ ++++ +
Sbjct: 53 YDLAQKDIETY-FSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLD 109
>3bv8_A Tetrahydrodipicolinate acetyltransferase; PFAM08503, structural
genomics, PSI-2, PR structure initiative; 1.75A
{Staphylococcus aureus subsp}
Length = 87
Score = 25.6 bits (56), Expect = 6.0
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 196 LKILIEEEAAKLESYRIENIRR 217
K E ++ E IE RR
Sbjct: 57 WKPFYEAYGSQFEDIEIEMDRR 78
>3dme_A Conserved exported protein; structural genomics, PSI-2, PROT
structure initiative, northeast structural genomics
consort NESG; HET: FAD TLA; 1.70A {Bordetella pertussis}
Length = 369
Score = 26.7 bits (60), Expect = 7.3
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 172 ATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLE 208
AT + LD+ + A N V L+ + A +LE
Sbjct: 94 ATSDAEASQLDSIARRAGANGVDDLQHIDGAAARRLE 130
>2wss_S ATP synthase subunit O, mitochondrial; hydrogen ION transport, ATP
synthesis, phosphoprotein, UBL conjugation, transit
peptide; HET: ANP ADP; 3.20A {Bos taurus} PDB: 2bo5_A
2jmx_A
Length = 190
Score = 26.5 bits (59), Expect = 8.1
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 13/78 (16%)
Query: 164 KYEKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLP 223
+ EKEL Q LK+P + A+ V++K + ++ K + P
Sbjct: 34 QVEKELLRVGQILKEPKMAASLLNPYVKRSVKVKS-------------LSDMTAKEKFSP 80
Query: 224 LIMNLLKLLAKQGQLVNL 241
L NL+ LLA+ G+L N
Sbjct: 81 LTSNLINLLAENGRLTNT 98
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
0.316 0.132 0.369
Gapped
Lambda K H
0.267 0.0585 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,712,489
Number of extensions: 214396
Number of successful extensions: 504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 481
Number of HSP's successfully gapped: 52
Length of query: 258
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 166
Effective length of database: 4,133,061
Effective search space: 686088126
Effective search space used: 686088126
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (25.7 bits)