RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14660
(375 letters)
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein,
nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}
Length = 192
Score = 215 bits (548), Expect = 2e-69
Identities = 90/194 (46%), Positives = 125/194 (64%), Gaps = 5/194 (2%)
Query: 2 VLESTMICVDNSDFMRNGDFLPTRLQAQQDAVNLVCHSKTRSNPENNVGLLAMADS-VEV 60
VLE+TMI +DNS++M NGD++PTR +AQ+D V+++ + K NPEN GL+ + D+ +V
Sbjct: 1 VLEATMILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQV 60
Query: 61 LATLTSDVGRILSKLHQVQPNGNINFMTGIRIAHLALKHRQGKNHKMRIIAFVGSPVDLE 120
L+TLT D G+ LS +H + GN F GI+IA LALKHR+ K + RI+AFVGSP+ +
Sbjct: 61 LSTLTRDYGKFLSAMHDLPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVED 120
Query: 121 ERELTKLAKRLKKEKVNVDIVSFGEEVVNTELLNTFISTLNGKDGSGSHMVTVAVGPH-L 179
E+ L +LAKR+KK V +DI+ GE N L FI N D H+V++ P L
Sbjct: 121 EKNLIRLAKRMKKNNVAIDIIHIGEL-QNESALQHFIDAANSSD--SCHLVSIPPSPQLL 177
Query: 180 SDALISSPIIQGED 193
SD + SPI QG
Sbjct: 178 SDLVNQSPIGQGVV 191
>1yx4_A 26S proteasome non-ATPase regulatory subunit 4; polyubiquitin, UIM,
hydrolase; NMR {Homo sapiens} PDB: 1yx5_A 1yx6_A 2kde_A
2kdf_A
Length = 132
Score = 86.6 bits (213), Expect = 6e-21
Identities = 53/114 (46%), Positives = 65/114 (57%), Gaps = 2/114 (1%)
Query: 194 GAGGAPGSSYEFGVDPNEDPELALALRVSMEEQRARQESEARRAAEGASGADTSASSAVP 253
G S +EFGVDP+ DPELALALRVSMEEQR RQE EARRAA ++ A++
Sbjct: 21 HMLGLGASDFEFGVDPSADPELALALRVSMEEQRQRQEEEARRAAAASAAEAGIATTGTE 80
Query: 254 KPTAEAKDAPGDMATAAHPVGGQPDFATMTEEEQIAFAMQMSMQDTQEPAASSS 307
G PD ++MTEEEQIA+AMQMS+Q + A S+
Sbjct: 81 DSDDALLKMTISQQEFGRT--GLPDLSSMTEEEQIAYAMQMSLQGAEFGQAESA 132
>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein
structure, midwest center for S genomics, MCSG, PSI-2;
HET: MSE; 2.10A {Bacteroides thetaiotaomicron}
Length = 218
Score = 45.0 bits (107), Expect = 1e-05
Identities = 31/140 (22%), Positives = 55/140 (39%), Gaps = 8/140 (5%)
Query: 7 MICVDNSDFMRNGDFLPTRL-QAQQDAVNLVCHSKTRSNPENNVGLLAMADSVEVLATLT 65
+I +D S+ M D P+RL +A++ LV + VG++ A +T
Sbjct: 15 IIALDISNSMLAQDVQPSRLEKAKRLISRLV-----DELDNDKVGMIVFAGDAFTQLPIT 69
Query: 66 SDVGRILSKLHQVQPNGNINFMTGIRIA-HLALKHRQGKNHKMRIIAFVGSPVDLEEREL 124
SD L + P+ T I A +LA + + R I + + E
Sbjct: 70 SDYISAKMFLESISPSLISKQGTAIGEAINLATRSFTPQEGVGRAIIVITDGENHEG-GA 128
Query: 125 TKLAKRLKKEKVNVDIVSFG 144
+ AK ++ + V ++ G
Sbjct: 129 VEAAKAAAEKGIQVSVLGVG 148
>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane
protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a
1sht_X 1t6b_Y*
Length = 182
Score = 41.6 bits (98), Expect = 1e-04
Identities = 27/153 (17%), Positives = 51/153 (33%), Gaps = 14/153 (9%)
Query: 7 MICVDNSDFMRNGDFLPTRLQAQQDAVNLVCHSKTRSNPENNVGLLAMADSVEVLATLTS 66
+D S + +++ L + +PE + + + ++ LT
Sbjct: 10 YFVLDKSGSV-ANNWI-EIYNF---VQQLA---ERFVSPEMRLSFIVFSSQATIILPLTG 61
Query: 67 D---VGRILSKLHQVQPNGNINFMTGIRIAHLALKHRQGKNHKMRIIAFV-GSPVDLEER 122
D + + L L +V P G G+++A+ ++ G IIA G L
Sbjct: 62 DRGKISKGLEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVPS 121
Query: 123 ELTKLAKRLKKEKVNVDIVSFGEEVVNTELLNT 155
K AK + +V V + L
Sbjct: 122 YAEKEAKISRSLGASVYCVGVLD--FEQAQLER 152
>1p9c_A 26S proteasome non-ATPase regulatory subunit 4; alpha helix,
hairpin loop, ligand binding protein; NMR {Homo sapiens}
SCOP: j.105.1.1 PDB: 1p9d_S 1uel_B
Length = 45
Score = 37.2 bits (85), Expect = 3e-04
Identities = 17/26 (65%), Positives = 22/26 (84%)
Query: 275 GQPDFATMTEEEQIAFAMQMSMQDTQ 300
G PD ++MTEEEQIA+AMQMS+Q +
Sbjct: 12 GLPDLSSMTEEEQIAYAMQMSLQGAE 37
>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 = 5e-04
Identities = 37/240 (15%), Positives = 63/240 (26%), Gaps = 100/240 (41%)
Query: 51 LLAMADSVEVLATLTSDVGRILSKL----HQVQPNGNIN----------------FM--- 87
+A DS E +L + ++ PN ++ M
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 88 TGIRIAHLALKHRQGKNHKM----RI-IA-------FV--GSPVDLE--ERELTKLA--- 128
+ + + + N + ++ I+ V G P L L K
Sbjct: 342 SNLTQEQV-QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 129 ----------KR-------------------LK--KEKVNVDIVSFGEEVVNTELLNTFI 157
+R L + +N D+V ++
Sbjct: 401 GLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVY 460
Query: 158 STLNGKD---GSGSHMVTVAVGPHLSDALISSP-------------IIQGED-GAGGAPG 200
T +G D SGS + + D +I P I+ D G GGA G
Sbjct: 461 DTFDGSDLRVLSGS------ISERIVDCIIRLPVKWETTTQFKATHIL---DFGPGGASG 511
Score = 40.0 bits (93), Expect = 0.001
Identities = 23/144 (15%), Positives = 46/144 (31%), Gaps = 47/144 (32%)
Query: 30 QDAVNLVCHSKTR-----------SNPENNVGLLAMADSVEVLATLTSD-----VGRILS 73
+ V +V R +N G++A+ V A+ + + V R+
Sbjct: 1780 ESLVEVV---FYRGMTMQVAVPRDELGRSNYGMIAINPG-RVAASFSQEALQYVVERVGK 1835
Query: 74 KLHQ-VQP-NGNINFMTGIRIAHLALKHRQGKNHKMRIIAFVGSPVDLEERELTKLAKRL 131
+ V+ N N+ + + A G L+ +T + +
Sbjct: 1836 RTGWLVEIVNYNVE---NQQY----------------VAA--GDLRALDT--VTNVLNFI 1872
Query: 132 KKEKVNVD--IVSFGEEVVNTELL 153
K +K+++ S E V L
Sbjct: 1873 KLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 39.6 bits (92), Expect = 0.002
Identities = 52/393 (13%), Positives = 101/393 (25%), Gaps = 113/393 (28%)
Query: 20 DFL-----PTRLQAQQDAVNLVCHSKTRSNPENNVGLLA-----MADSVEVLATLTSDVG 69
F PT A D P L+ ++ VE S VG
Sbjct: 36 QFNKILPEPTEGFAADDE------------PTTPAELVGKFLGYVSSLVE-----PSKVG 78
Query: 70 RILSKLHQVQPNGNINFMTGIRI----AHLALKHRQGKNHKMRII-------AFVGSPVD 118
+ L+ ++ G I A L ++ +I P D
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 119 LEERELTKLAKRLKKEKVNVDIVSFG-----EEVVNTELLNTFISTLNGKDGSGSHMVTV 173
+ + L + + + + + FG ++ EL + +
Sbjct: 139 KKSN--SALFRAVGEGNAQL-VAIFGGQGNTDDYFE-ELRDLY----------------- 177
Query: 174 AVGPHLSDALI--SSPIIQGEDGAGGAPGSSYEFGVD-------PNEDPE---LALALRV 221
L LI S+ + + G++ P+ P+ L +
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP-I 236
Query: 222 SM--------------EEQRARQESEARRAAEGASGADTSASSAVPKPTAEAKDAPGDMA 267
S + E R +GA+G +AV AE
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA--IAETDSWE---- 290
Query: 268 TAAHPVGGQPDFATMTEEE-QIAFAMQMSMQDTQEPAASSSKAPASAAASEEAKAEPMDT 326
F + + F + + + + + + E PM +
Sbjct: 291 ----------SFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 327 DEMVNDA--AFLQSVLENLPGVDPQSAEVRHAL 357
+++ +Q + P +V +L
Sbjct: 341 ---ISNLTQEQVQDYVNKTNSHLPAGKQVEISL 370
Score = 31.6 bits (71), Expect = 0.59
Identities = 21/141 (14%), Positives = 39/141 (27%), Gaps = 46/141 (32%)
Query: 263 PGDMATAAHPVGGQPDFATMTEEE---QIAFAMQMSMQDT-----------QE--PAASS 306
P D A H +G E + A MS++ Q P
Sbjct: 1754 PADATFAGHSLG-----------EYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDEL 1802
Query: 307 SKAPASAAASEEAKAEPMDTDEMVND-----AAFLQSVLE----NLPGVDPQ---SAEVR 354
++ A + + E + ++E N+ Q + ++R
Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ--QYVAAGDLR 1860
Query: 355 HALSSSAEKPAKKKDEKKEKK 375
AL + + K +K
Sbjct: 1861 -AL----DTVTNVLNFIKLQK 1876
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining,
protein/nucleic acid complex, alpha/beta domain, beta
barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2
c.62.1.4 PDB: 1jeq_B*
Length = 565
Score = 39.1 bits (90), Expect = 0.002
Identities = 18/157 (11%), Positives = 52/157 (33%), Gaps = 19/157 (12%)
Query: 4 ESTMICVDNSDFMRNGDF-LPTRLQAQQDAVNLVCHSKTRSNPENNVGLLAM-------- 54
+ ++C+D M N + + + + + + + + ++ + L+
Sbjct: 8 AAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNP 67
Query: 55 ------ADSVEVLATLTSDVGRILSKLHQVQPNGN--INFMTGIRIAHLALKHRQGKNH- 105
++ V L +L + G+ +F+ + ++ ++H
Sbjct: 68 LSGGDQYQNITVHRHLMLPDFDLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKF 127
Query: 106 -KMRIIAFVGSPVDLEERELTKLAKRLKKEKVNVDIV 141
K I F + +L + LKK +++
Sbjct: 128 EKRHIEIFTDLSSRFSKSQLDIIIHSLKKCDISLQFF 164
>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 = 37.9 bits (87), Expect = 0.005
Identities = 57/403 (14%), Positives = 112/403 (27%), Gaps = 120/403 (29%)
Query: 9 CVDNSDFMRNG------DFL---PTRLQAQQDAVNLVCHSKTRSNPENNVGLLAMADSVE 59
C D D ++ D + + + S E V VE
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL-----SKQEEMV-----QKFVE 84
Query: 60 VLATLTSDVGRILSKLHQV--QPNGNINFMTGIRIAHLALKHR-QGKNHKMRIIAFVGSP 116
L + ++S + QP + + ++ + R N F
Sbjct: 85 --EVLRINYKFLMSPIKTEQRQP-------SMMTRMYIEQRDRLYNDNQV-----FAKYN 130
Query: 117 VDLEERELTKLAKRLKKEKVNVDIVSFGEEVVNTELLNTFISTLNGKDGSGSHMVTVAVG 176
V + KL + L + + +++ ++G GSG T
Sbjct: 131 VSRLQ-PYLKLRQALLELRPAKNVL------------------IDGVLGSGK---TWVA- 167
Query: 177 PHLSDALISSPIIQGED--------GAGGAPGSSYE------FGVDPN--EDPELALALR 220
D +S + D +P + E + +DPN + + ++
Sbjct: 168 ---LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 221 VSMEEQRAR-----QESEARRA---------AEGASGAD-------TSASSAVPKPTAEA 259
+ + +A + A+ + + T+ V +
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV----TDF 280
Query: 260 KDAPGDMATAAHPVGGQPDFATMTEEEQIA-FAMQMSMQDTQEPAASSSKAP-ASAAASE 317
A AT H T+T +E + + + P + P + +E
Sbjct: 281 LSA----ATTTHISLDHHS-MTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 318 EAKAEPMDTD--EMVNDAAF---LQSVLENLPGVDPQSAEVRH 355
+ D + VN ++S L L +P AE R
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVL---EP--AEYRK 373
>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll
biosynthesis, photosynthesis; 7.50A {Rhodobacter
capsulatus}
Length = 189
Score = 33.0 bits (75), Expect = 0.079
Identities = 20/149 (13%), Positives = 49/149 (32%), Gaps = 18/149 (12%)
Query: 7 MICVDNSDFMRNGDFLPTRLQAQQDAVNLVCHSKTRSNPENNVGLLAMA-DSVEVLATLT 65
+ VD S A+ L+ + ++V L+ + +VL +
Sbjct: 9 IFAVDASGSAAVARLSE----AKGAVELLLGRA---YAARDHVSLITFRGTAAQVLLQPS 61
Query: 66 SDVGRILSKLHQVQPNGNINFMTGIRIAHLALKHRQGKNHKMRIIAF----------VGS 115
+ + +L + G +G+ +A + K + + I +
Sbjct: 62 RSLTQTKRQLQGLPGGGGTPLASGMEMAMVTAKQARSRGMTPTIALLTDGRGNIALDGTA 121
Query: 116 PVDLEERELTKLAKRLKKEKVNVDIVSFG 144
+L + TK+A+ ++ + I+
Sbjct: 122 NRELAGEQATKVARAIRASGMPAVIIDTA 150
>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 = 32.6 bits (73), Expect = 0.090
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 12/27 (44%)
Query: 198 APGSSYEFGVDPNEDPELALALRVSME 224
A S+ P ALA++ +ME
Sbjct: 33 ADDSA----------P--ALAIKATME 47
Score = 28.8 bits (63), Expect = 1.6
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 120 EERELTKLAKRLK 132
E++ L KL LK
Sbjct: 18 EKQALKKLQASLK 30
>3ff1_A Glucose-6-phosphate isomerase; alpha beta, rossmann fold,
gluconeogenesis, glycolysis, structural genomics; HET:
G6Q; 1.65A {Staphylococcus aureus subsp} PDB: 3ifs_A*
Length = 446
Score = 33.9 bits (78), Expect = 0.091
Identities = 17/89 (19%), Positives = 32/89 (35%), Gaps = 6/89 (6%)
Query: 89 GIRIAHLALKHRQGKNHKMRIIAFVGSPVDLEERELTKLAKRLKKEKVNVDIVS--FG-- 144
G R A L +++ I FVG+ + +L L + +V+++S
Sbjct: 90 GARAAIEMLTSSFRNSNEYPEIVFVGNHLS--STYTKELVDYLADKDFSVNVISKSGTTT 147
Query: 145 EEVVNTELLNTFISTLNGKDGSGSHMVTV 173
E V L + GK+ + +
Sbjct: 148 EPAVAFRLFKQLVEERYGKEEAQKRIFAT 176
>4gdh_A DJ-1, uncharacterized protein C22E12.03C; unknown function,
cysteine oxidation; 1.05A {Schizosaccharomyces pombe}
PDB: 4ge3_A 4ge0_A
Length = 194
Score = 30.2 bits (69), Expect = 0.77
Identities = 18/103 (17%), Positives = 35/103 (33%), Gaps = 23/103 (22%)
Query: 104 NHKMRIIAFV--GSPVDLEERELTKLAKRLKKEKVNVDIVSFGEEVVNTELLNTFISTLN 161
+H +++ FV G+ +E E + K+ ++ +D V GE
Sbjct: 2 SHMVKVCLFVADGT----DEIEFSAPWGIFKRAEIPIDSVYVGEN--------------K 43
Query: 162 GKDGSGSHMVTVAVGPHLSDALISSPIIQGEDGA---GGAPGS 201
+ S V + + + + D A GG G+
Sbjct: 44 DRLVKMSRDVEMYANRSYKEIPSADDFAKQYDIAIIPGGGLGA 86
>3gdb_A Endo-D, putative uncharacterized protein SPR0440;
alpha-beta-barrels, cell WALL, peptidoglycan-anchor,
secreted, hydrolase; HET: PGE; 1.87A {Streptococcus
pneumoniae} PDB: 2xqx_A
Length = 937
Score = 30.7 bits (68), Expect = 1.00
Identities = 16/128 (12%), Positives = 39/128 (30%), Gaps = 2/128 (1%)
Query: 201 SSYEFGVDPNEDPELALALRVSMEEQRARQESEARRAAEGASGADTSASSAVPKPTAEAK 260
+ F + PE + A + + +EA + EG + + A A
Sbjct: 15 ENLYFQGEETAVPENSGANTELVSGESEHSTNEADKQNEGEHARENKLEK--AEGVATAS 72
Query: 261 DAPGDMATAAHPVGGQPDFATMTEEEQIAFAMQMSMQDTQEPAASSSKAPASAAASEEAK 320
+ + A + EE+ + + + +P + A ++ +
Sbjct: 73 ETASPASNEAATTETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKPEATNQGDE 132
Query: 321 AEPMDTDE 328
++P
Sbjct: 133 SKPAAEAN 140
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 30.6 bits (69), Expect = 1.1
Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 9/94 (9%)
Query: 206 GVDPNED-PELALALRVSMEEQRARQESEARRAAEGASGADTSASSAVPKPTAEAKDAPG 264
G+ + E LR + E SE R+A + + V +A+A A
Sbjct: 730 GLQFVPELKEFTAKLRKELVET-----SEVRKAVSIETALE---HKVVNGNSADAAYAQV 781
Query: 265 DMATAAHPVGGQPDFATMTEEEQIAFAMQMSMQD 298
++ A+ P+ + +QIA A + D
Sbjct: 782 EIQPRANIQLDFPELKPYKQVKQIAPAELEGLLD 815
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 1.2
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 7/40 (17%)
Query: 210 NEDPELALALRVSMEEQRAR----QESEARRAAEGASGAD 245
++PE ++R EEQR R + E A
Sbjct: 81 TQEPE---SIRKWREEQRKRLQELDAASKVMEQEWREKAK 117
>1n9b_A Penicillinase, beta-lactamase SHV-2; beta-lactam hydrolase,
detergent binding, drug design, radiation damage; HET:
MA4 EPE; 0.90A {Klebsiella pneumoniae} SCOP: e.3.1.1
PDB: 3d4f_A* 2zd8_A* 1q2p_A* 1shv_A* 1vm1_A* 2g2u_A
2h5s_A* 1ong_A* 3c4o_A 3c4p_A 3mke_A* 3mkf_A* 3mxr_A*
3mxs_A* 3n4i_A 2a3u_A* 3opr_A* 3opl_A* 3oph_A* 3opp_A*
...
Length = 265
Score = 28.3 bits (63), Expect = 3.6
Identities = 10/60 (16%), Positives = 15/60 (25%), Gaps = 4/60 (6%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV----NDAAFLQSVLENLPGVDPQSAEV 353
D + P S+ K A A + + D V E E+
Sbjct: 38 DERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDLVDYSPVSEKHLADGMTVGEL 97
>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger
esential for function;...; stable, non-interacting
alpha-helices; NMR {Saccharomyces cerevisiae} SCOP:
j.105.1.1 PDB: 1q0w_A
Length = 81
Score = 26.7 bits (59), Expect = 3.9
Identities = 11/44 (25%), Positives = 25/44 (56%)
Query: 284 EEEQIAFAMQMSMQDTQEPAASSSKAPASAAASEEAKAEPMDTD 327
EEE I A+++S+++++ A+S P + +E + E + +
Sbjct: 11 EEELIRKAIELSLKESRNSASSEPIVPVVESKNEVKRQEIEEEE 54
>3zx1_A Oxidoreductase, putative; laccase, metallo-oxidase, cuprous
oxidase; 1.95A {Campylobacter jejuni subsp}
Length = 481
Score = 28.4 bits (63), Expect = 4.5
Identities = 12/100 (12%), Positives = 27/100 (27%), Gaps = 1/100 (1%)
Query: 198 APGSSYEFGVDPNEDPELAL-ALRVSMEEQRARQESEARRAAEGASGADTSASSAVPKPT 256
+P S E +D +D L + ++ ++E A + K
Sbjct: 274 SPASRVEVLIDAPKDGNFKLESAYYDRDKMMVKEEPNTLFLANINLKKENVELPKNLKIF 333
Query: 257 AEAKDAPGDMATAAHPVGGQPDFATMTEEEQIAFAMQMSM 296
+++ Q E ++ A+
Sbjct: 334 KPSEEPKEFKEIIMSEDHMQMHGMMGKSEGELKIALASMF 373
>1f3y_A Diadenosine 5',5'''-P1,P4-tetraphosphate hydrolase; enzyme,mixed
4-stranded beta sheet, 2-stranded antiparallel sheet;
NMR {Lupinus angustifolius} SCOP: d.113.1.1 PDB: 1jkn_A*
Length = 165
Score = 27.5 bits (62), Expect = 4.9
Identities = 10/20 (50%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 206 GVDPNEDPELALALRVSMEE 225
G+D EDP A A+R EE
Sbjct: 46 GIDEGEDPRNA-AIRELREE 64
>2krg_A Na(+)/H(+) exchange regulatory cofactor NHE-RF1; acetylation, cell
projection, disease mutation, membrane, phosphoprotein,
polymorphism; NMR {Homo sapiens}
Length = 216
Score = 27.8 bits (61), Expect = 5.0
Identities = 13/62 (20%), Positives = 24/62 (38%)
Query: 176 GPHLSDALISSPIIQGEDGAGGAPGSSYEFGVDPNEDPELALALRVSMEEQRARQESEAR 235
P L + S + S + DP L + ++M ++RA Q+ ++
Sbjct: 140 RPALVRSASSDTSEELNSQDSPPKQDSTAPSSTSSSDPILDFNISLAMAKERAHQKRSSK 199
Query: 236 RA 237
RA
Sbjct: 200 RA 201
>3l18_A Intracellular protease I; gatase1_PFPI_LIKE, hydrolase; 1.78A
{Thermococcus onnurineus} PDB: 1g2i_A
Length = 168
Score = 27.5 bits (62), Expect = 5.1
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 107 MRIIAFVGSPVDLEERELTKLAKRLKKEKVNVDIVSFGEEVV 148
M+++ E+ EL R+K+E V + SF +
Sbjct: 3 MKVLFLSADGF--EDLELIYPLHRIKEEGHEVYVASFQRGKI 42
>3p09_A Beta-lactamase; structural genomics, center for structural genomics
of infec diseases, csgid, alpha-beta sandwich, cytosol;
HET: MSE; 1.90A {Francisella tularensis subsp}
Length = 290
Score = 28.0 bits (62), Expect = 5.2
Identities = 5/33 (15%), Positives = 8/33 (24%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
P S K A + D+ +
Sbjct: 57 SYHFPICSVFKFLLVGAILDYDMHNQGFLDKKI 89
>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein,
fluor membrane, lipoprotein, palmitate, prenylation;
HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X*
2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A*
6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A*
1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...
Length = 166
Score = 27.5 bits (62), Expect = 5.5
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 13/40 (32%)
Query: 113 VGSPVDLEERELTK-----LAKRLK--------KEKVNVD 139
VG+ DL R + LA+ K + V+
Sbjct: 114 VGNKSDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVE 153
>2j9o_A TLL2115 protein; penicillin-binding protein, hydrolase, lactamase,
thioestera DD-peptidase; 1.50A {Synechococcus elongatus}
PDB: 2jbf_A* 2j7v_A 2j8y_A*
Length = 298
Score = 27.8 bits (62), Expect = 5.7
Identities = 9/33 (27%), Positives = 13/33 (39%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
D PAAS+ K P A + + E +
Sbjct: 54 DQVFPAASTIKFPILVAFFKAVDEGRVTLQERL 86
>1m40_A TEM-1, beta-lactamase TEM; acylation mechanism, ultra- high
resolution, hydrolase; HET: CB4; 0.85A {Escherichia
coli} SCOP: e.3.1.1 PDB: 1jwp_A* 1nxy_A* 1ny0_A* 1nym_A*
1nyy_A* 1pzo_A* 1erm_A* 1ero_A* 1erq_A* 1s0w_A 1xpb_A
1li0_A 1htz_A 1jtd_A 1esu_A 1jwz_A* 1li9_A 1jwv_A*
1jtg_A 1axb_A* ...
Length = 263
Score = 27.6 bits (61), Expect = 5.8
Identities = 5/33 (15%), Positives = 9/33 (27%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
+ + P S+ K A A +
Sbjct: 38 EERFPMMSTFKVLLCGAVLSRVDAGQEQLGRRI 70
>3cne_A Putative protease I; structural genomics, PSI-2, MCSG, protein
struct initiative, midwest center for structural
genomics; HET: FMN; 1.99A {Bacteroides thetaiotaomicron
vpi-5482}
Length = 175
Score = 27.1 bits (61), Expect = 6.1
Identities = 3/38 (7%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 108 RIIAFVGSPVDLEERELTKLAKRLKKEKVNVDIVSFGE 145
++ +PV L + + + ++ + + +
Sbjct: 4 KVAVLAVNPV--NGCGLFQYLEAFFENGISYKVFAVSD 39
>2cc1_A Beta-lactamase, penicillinase; hydrolase, antibiotic resistance,
broad-spectrum; 2.13A {Mycobacterium fortuitum} SCOP:
e.3.1.1
Length = 262
Score = 27.5 bits (61), Expect = 6.5
Identities = 7/33 (21%), Positives = 12/33 (36%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
D S+ K +A + A+ + D V
Sbjct: 36 DEMFAMCSTFKGYVAARVLQMAEHGEISLDNRV 68
>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition,
kinase-INH complex, rubredoxin fold, TPR domain,
transferase; HET: AXX; 2.40A {Mycobacterium
tuberculosis}
Length = 681
Score = 27.9 bits (62), Expect = 6.8
Identities = 19/152 (12%), Positives = 35/152 (23%), Gaps = 6/152 (3%)
Query: 209 PNEDPELALALRVSME---EQRARQESEARRAAEGASGADTSASSAVPKPTAEAKDAPGD 265
LR +++ QR E G + + VP+P +P
Sbjct: 291 LKTYDSYGRLLRRAIDPDPRQRFTTAEEMSAQLTGVLREVVAQDTGVPRPGLSTIFSPSR 350
Query: 266 MATAAHPVGGQPDFATMTEEEQIAFAMQMSMQDTQEPAASSSKAPASAAASEEAKAEPMD 325
+ D + + P + AS +
Sbjct: 351 STFGVDLLVAHTDVYLDGQVHAEKLTANEIVTALSVPLVDPTDVAASVLQATVLSQPVQT 410
Query: 326 TDEMVNDAAFLQSVLENLPGVDPQSAEVRHAL 357
D + A L+ +S E+
Sbjct: 411 LDSL---RAARHGALDADGVDFSESVELPLME 439
>1o7e_A L2 beta lactamase; hydrolase, class A; 1.51A {Stenotrophomonas
maltophilia} SCOP: e.3.1.1 PDB: 1n4o_A
Length = 276
Score = 27.6 bits (61), Expect = 7.0
Identities = 17/84 (20%), Positives = 28/84 (33%), Gaps = 3/84 (3%)
Query: 247 SASSAVPKPTAEAKDAPGDMATAAHPVGGQPDFATMTEEEQIAFAMQMSMQDTQEPAASS 306
+ + PT A A D A G+ + + QD + P S+
Sbjct: 1 AGKATANAPTDAAITAASDFAALEKACAGRLGVTLLDTASGRRIGHR---QDERFPMCST 57
Query: 307 SKAPASAAASEEAKAEPMDTDEMV 330
K+ +A +A+ P D V
Sbjct: 58 FKSMLAATVLSQAERMPALLDRRV 81
>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase;
HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A*
4dso_A*
Length = 189
Score = 27.2 bits (61), Expect = 7.2
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 13/40 (32%)
Query: 113 VGSPVDLEERELTK-----LAKRLK--------KEKVNVD 139
VG+ DL R + LA+ K + VD
Sbjct: 115 VGNKCDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVD 154
>2kdv_A RNA pyrophosphohydrolase; nudix family, magnesium, manganese, zinc;
NMR {Escherichia coli} PDB: 2kdw_A
Length = 164
Score = 27.1 bits (61), Expect = 7.3
Identities = 8/20 (40%), Positives = 10/20 (50%), Gaps = 1/20 (5%)
Query: 206 GVDPNEDPELALALRVSMEE 225
G++P E E A R EE
Sbjct: 39 GINPGESAEQA-MYRELFEE 57
>1bsg_A Beta lactamase, penicillinase; hydrolase, antibiotic resistance;
1.85A {Streptomyces albus} SCOP: e.3.1.1
Length = 266
Score = 27.2 bits (60), Expect = 7.6
Identities = 7/33 (21%), Positives = 10/33 (30%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
D P S K +SAA + +
Sbjct: 36 DELFPMCSVFKTLSSAAVLRDLDRNGEFLSRRI 68
>1e25_A Extended-spectrum beta-lactamase PER-1; hydrolase, antibiotic
resistance, class A cephalosporinase; 1.9A {Pseudomonas
aeruginosa} SCOP: e.3.1.1
Length = 282
Score = 27.5 bits (61), Expect = 7.7
Identities = 5/33 (15%), Positives = 11/33 (33%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
+ P S K + + +D ++ V
Sbjct: 38 FEKFPMQSVFKLHLAMLVLHQVDQGKLDLNQTV 70
>1g6a_A Beta-lactamase PSE-4; class A beta-lactamase, carbenicillinase,
R234K mutant, hydrolase; 1.75A {Pseudomonas aeruginosa}
SCOP: e.3.1.1 PDB: 1g68_A
Length = 271
Score = 27.2 bits (60), Expect = 7.7
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 298 DTQEPAASSSKAPASAAASEEAKAEPMDTDEMV 330
+ + P S+ K A A +A+ ++ + V
Sbjct: 41 NQRFPLTSTFKTIACAKLLYDAEQGKVNPNSTV 73
>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene,
disease mutation, golgi apparatus, GTP-binding,
lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo
sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*
Length = 190
Score = 27.2 bits (61), Expect = 7.8
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 13/40 (32%)
Query: 113 VGSPVDLEERELTK-----LAKRLK--------KEKVNVD 139
VG+ DL R + LAK K + V+
Sbjct: 132 VGNKCDLPTRTVDTKQAHELAKSYGIPFIETSAKTRQGVE 171
>2jx3_A Protein DEK; alpha helix, SAF/SAP motif, DNA binding, chromosomal
rearrangement, DNA-binding, nucleus, phosphorylation,
proto oncogene; NMR {Homo sapiens}
Length = 131
Score = 26.4 bits (58), Expect = 9.5
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 94 HLALKHRQGKNHKMR--IIAFVGSPVDLEERELTKLAKRLKK 133
H L +R G ++ + F G P + + K + LKK
Sbjct: 33 HKLLYNRPGTVSSLKKNVGQFSGFPFEKGSVQYKKKEEMLKK 74
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
0.309 0.125 0.337
Gapped
Lambda K H
0.267 0.0795 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,458,079
Number of extensions: 341764
Number of successful extensions: 774
Number of sequences better than 10.0: 1
Number of HSP's gapped: 761
Number of HSP's successfully gapped: 73
Length of query: 375
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 280
Effective length of database: 4,049,298
Effective search space: 1133803440
Effective search space used: 1133803440
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 58 (26.0 bits)