RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18133
(177 letters)
>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein
prenylation, metal-binding, prenyltransferase, zinc,
phosphoprotein; 1.80A {Rattus norvegicus} SCOP:
a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B*
3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B*
3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B*
Length = 331
Score = 139 bits (350), Expect = 9e-41
Identities = 83/177 (46%), Positives = 110/177 (62%), Gaps = 10/177 (5%)
Query: 6 IGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKL 65
+GKLDAIN+ KA+EF+LSC NFDGGFG RPGSESHAG YCC GFL+IT LH++++D L
Sbjct: 156 LGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLL 215
Query: 66 AWWLAER-GDHSSDNLQPSQLS------WYNFVRAHFEGDFFSGRFCNRAS-LVSLDVES 117
WWL ER N +P +L W + R R+ L D E+
Sbjct: 216 GWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEET 275
Query: 118 GGISDRPLDIPDPFHTLFGVAALTMLDPPTPDVLPVDPTYCMPRYVIERLNLNPQRL 174
GG +DRP D+ DPFHTLFG+A L++L + PV P +CMP V++R+N+ P+ +
Sbjct: 276 GGFADRPGDMVDPFHTLFGIAGLSLLG--EEQIKPVSPVFCMPEEVLQRVNVQPELV 330
Score = 54.7 bits (131), Expect = 2e-09
Identities = 26/148 (17%), Positives = 47/148 (31%), Gaps = 7/148 (4%)
Query: 6 IGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKL 65
+G+L +N + + FI SC + GG + G + H T V L++ +H I+ DK+
Sbjct: 60 MGQLHRMNKEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKV 119
Query: 66 AWWLAER-----GDHSSDNLQPSQLSWYNFVRAHFEGDFFSGRFCNRAS--LVSLDVESG 118
++ + + V +A ++S G
Sbjct: 120 VAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLDAINVEKAIEFVLSCMNFDG 179
Query: 119 GISDRPLDIPDPFHTLFGVAALTMLDPP 146
G RP L +
Sbjct: 180 GFGCRPGSESHAGQIYCCTGFLAITSQL 207
Score = 40.9 bits (95), Expect = 9e-05
Identities = 23/147 (15%), Positives = 47/147 (31%), Gaps = 7/147 (4%)
Query: 9 LDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKLAWW 68
D + L K ++I S + + Y + + + G LH ++ +++ +
Sbjct: 15 PDTLLLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHRMNKEEILVF 74
Query: 69 LAERGDH-----SSDNLQPSQLSWYNFVR--AHFEGDFFSGRFCNRASLVSLDVESGGIS 121
+ +S P L + V+ ++ A + SL E G +
Sbjct: 75 IKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFA 134
Query: 122 DRPLDIPDPFHTLFGVAALTMLDPPTP 148
D + VA L +L
Sbjct: 135 GDIWGEIDTRFSFCAVATLALLGKLDA 161
>1n4q_B Geranyltransferase type-I beta subunit; protein
geranylgeranyltransferase type-I, ggtase; HET: MGM GER;
2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B*
1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B*
1tnz_B*
Length = 377
Score = 132 bits (333), Expect = 7e-38
Identities = 35/172 (20%), Positives = 67/172 (38%), Gaps = 12/172 (6%)
Query: 6 IGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEI----D 61
+ +++ KA+ +I ++D G G ESH G T+C + L + G L E+ +
Sbjct: 185 LNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVFSEKE 244
Query: 62 ADKLAWWLAERGDH----SSDNLQPSQLSWYNFVRAHFEG--DFFSGRFCNRASLVSLDV 115
+++ W R + + + S++ + + L + D
Sbjct: 245 LNRIKRWCIMRQQNGYHGRPNKPVDTCYSFWVGATLKLLKIFQYTNFEKNRNYILSTQDR 304
Query: 116 ESGGISDRPLDIPDPFHTLFGVAALTMLDPPTPDVLPVDPTYCMPRYVIERL 167
GG + P PD H FG+ L++++ + V P + ERL
Sbjct: 305 LVGGFAKWPDSHPDALHAYFGICGLSLME--ESGICKVHPALNVSTRTSERL 354
Score = 42.5 bits (99), Expect = 3e-05
Identities = 25/156 (16%), Positives = 43/156 (27%), Gaps = 33/156 (21%)
Query: 20 FILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITG-HLHEIDADKLAWWLAERGDHSSD 78
+ + P H +TY + L I G L +D + L
Sbjct: 101 LGIPFNPSKNPGTAHPYDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLR-------- 152
Query: 79 NLQPSQLSWYNFVRAHFEGDFFSGRFCNRASLVS--------LDVES------------G 118
LQ S+ E D RF AS + +D++
Sbjct: 153 ALQLEDGSFCAVP-EGSENDM---RFVYCASCICYMLNNWSGMDMKKAISYIRRSMSYDN 208
Query: 119 GISDRPLDIPDPFHTLFGVAALTMLDPPTPDVLPVD 154
G++ T G+A+L ++ +
Sbjct: 209 GLAQGAGLESHGGSTFCGIASLCLMGKLEEVFSEKE 244
Score = 30.1 bits (67), Expect = 0.32
Identities = 17/128 (13%), Positives = 33/128 (25%), Gaps = 18/128 (14%)
Query: 18 VEFILSC-CNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKLAWWLAERGDHS 76
V F C + S S + + + L + L ++ D + W+
Sbjct: 26 VRFFQRCLQVLPERYSSL--ETSRLTIAFFALSGLDMLDSLDVVNKDDIIEWI------- 76
Query: 77 SDNLQPSQLSWYNFVRAHFEGDFFSGRFCNRASLVSLDVESGGISDRPLDIPDPFHTLFG 136
S G + + + + P D T G
Sbjct: 77 --------YSLQVLPTEDRSNLDRCGFRGSSYLGIPFNPSKNPGTAHPYDSGHIAMTYTG 128
Query: 137 VAALTMLD 144
++ L +L
Sbjct: 129 LSCLIILG 136
>3dra_B Geranylgeranyltransferase type I beta subunit;
geranylgeranyltrasferase, ggtase, ggtase-I, PGGT,
prenyltransferase, farnesyltransferase; HET: B3P GRG;
1.80A {Candida albicans}
Length = 390
Score = 128 bits (321), Expect = 6e-36
Identities = 38/204 (18%), Positives = 66/204 (32%), Gaps = 44/204 (21%)
Query: 5 PIGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADK 64
I+L +FIL N +GGF S ESH G T+C + L +
Sbjct: 184 EDSNETDIDLISLQQFILDRININGGFSSTIMDESHLGFTFCAIASLKLLN-YPLEKLKS 242
Query: 65 LAWWLAER---------GDHSSDNLQPSQLSWYNFVRAHFEGDFFSGR----------FC 105
WL R + + + ++ + G F+GR +
Sbjct: 243 TKEWLIHRQVDYPENLYPKDGNGDGNGNGDNYEYYRNIDIGG--FNGRENKLSDTCYSWW 300
Query: 106 NRASLVSLDV----------------------ESGGISDRPLDIPDPFHTLFGVAALTML 143
SL ++DV GG P PDP H+ +A+L++
Sbjct: 301 CTGSLYNIDVNFIKLVDLNKAEDYLLNKTQNQLFGGFGRDPDSTPDPMHSYLALASLSLW 360
Query: 144 DPPTPDVLPVDPTYCMPRYVIERL 167
+ + ++P + + +
Sbjct: 361 NHEKFALQEINPILTITKESYQFF 384
Score = 34.0 bits (77), Expect = 0.020
Identities = 27/199 (13%), Positives = 52/199 (26%), Gaps = 57/199 (28%)
Query: 6 IGKLDAIN--LSKAVEFILSCCNFD------------GGFGSRPGSESHAGLTYCCVGFL 51
I K N L FI++ + ++ + T + L
Sbjct: 45 IQKFQFTNQELIYYRNFIINQFMIENNQIISFRSTHYFQKTNQKYDCPNLSSTLFALYNL 104
Query: 52 SITG--HLHEIDADKLAWWLAER-----GDHSSDNLQPSQLSWYNFVRAHFEGDFFSGRF 104
I + I+ K+ +L + + + + E D R
Sbjct: 105 LILKSPYHTIINRKKIMNFLCKCQVKDGINKGGFVPTLYYNEENGDYKQYGEPDL---RV 161
Query: 105 C---------------------NRASLVSLDVES------------GGISDRPLDIPDPF 131
C ++ +D+ S GG S +D
Sbjct: 162 CYMALLIRHLMKYDDNNNNNNREDSNETDIDLISLQQFILDRININGGFSSTIMDESHLG 221
Query: 132 HTLFGVAALTMLDPPTPDV 150
T +A+L +L+ P +
Sbjct: 222 FTFCAIASLKLLNYPLEKL 240
>2h6f_B Protein farnesyltransferase beta subunit; ftase,
farnesyltransferase, farnesyl transferase,
prenyltransferase, CAAX, RAS, lipid modification,
prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP:
a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B*
1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B*
2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B*
1d8e_B* ...
Length = 437
Score = 128 bits (322), Expect = 6e-36
Identities = 36/197 (18%), Positives = 65/197 (32%), Gaps = 36/197 (18%)
Query: 6 IGKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKL 65
+ E+I C N++GG G PG E+H G T+C + L I ++ L
Sbjct: 214 TNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRERSLNLKSL 273
Query: 66 AWWLAER------GDHSSDNLQPSQL-SWY----------NFVRAHFEGDFFSGRFCNRA 108
W+ R G N S++ S ++
Sbjct: 274 LQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQ 333
Query: 109 S-----LVSLDVESGGISDRPLDIPDPFHTLFGVAALTMLD--------------PPTPD 149
+ L+ +GG+ D+P D +HT + ++ L++ P
Sbjct: 334 ALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHFGSGAMLHDVVLGVPENA 393
Query: 150 VLPVDPTYCMPRYVIER 166
+ P P Y + + +
Sbjct: 394 LQPTHPVYNIGPDKVIQ 410
Score = 56.3 bits (135), Expect = 5e-10
Identities = 30/146 (20%), Positives = 45/146 (30%), Gaps = 10/146 (6%)
Query: 9 LDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKLAWW 68
D IN K ++++ S DG F G E YC S+T + + A W
Sbjct: 169 YDIINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGTAEW 228
Query: 69 LAER----GDHSSDNLQPSQLSWYNFVRAHFEGDFFSGRFCNRASLVSLDVE-----SGG 119
+A G + Y F R N SL+ GG
Sbjct: 229 IARCQNWEGGIGGVPGMEAH-GGYTFCGLAALVILKRERSLNLKSLLQWVTSRQMRFEGG 287
Query: 120 ISDRPLDIPDPFHTLFGVAALTMLDP 145
R + D ++ + L +L
Sbjct: 288 FQGRCNKLVDGCYSFWQAGLLPLLHR 313
Score = 54.8 bits (131), Expect = 2e-09
Identities = 39/164 (23%), Positives = 55/164 (33%), Gaps = 36/164 (21%)
Query: 8 KLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITG---HLHEIDADK 64
+ I + +F+ C + +GGFG PG H TY V L I G I+ +K
Sbjct: 117 PIPQIVATDVCQFLELCQSPEGGFGGGPGQYPHLAPTYAAVNALCIIGTEEAYDIINREK 176
Query: 65 LAWWLAERGDHSSDNLQPSQLSWYNFVRAHFEGDFFSGRFCNRASLVS--------LDVE 116
L +L L+ S+ V E D R A+ V+ E
Sbjct: 177 LLQYLYS--------LKQPDGSFLMHV--GGEVD---VRSAYCAASVASLTNIITPDLFE 223
Query: 117 ------------SGGISDRPLDIPDPFHTLFGVAALTMLDPPTP 148
GGI P +T G+AAL +L
Sbjct: 224 GTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRERS 267
>3q7a_B Farnesyltransferase beta subunit; protein prenyltransferase,
transferase-transferase inhibitor; HET: SUC 3CX FPP 778;
2.00A {Cryptococcus neoformans} PDB: 3q73_B* 3q78_B*
3q79_B* 3q75_B* 3q7f_B* 3sfx_B* 3sfy_B*
Length = 520
Score = 91.5 bits (226), Expect = 4e-22
Identities = 30/242 (12%), Positives = 57/242 (23%), Gaps = 77/242 (31%)
Query: 7 GKLDAINLSKAVEFILSCCNFDGGFGS-----------------------RPGSESHAGL 43
+ L +F+ +C ++GGF +E+H G
Sbjct: 210 DIITPELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSAFPTSEPSCRVSMAEAHGGY 269
Query: 44 TYCCVGFLSITGHLHE------IDADKLAWWLAER------------------------- 72
T C + + + IDA+ W +
Sbjct: 270 TSCSLNSHFLLTSVPLPSFPLSIDANAALRWTVLQQGEPIEGGGFRGRTNKLVDGCYSWW 329
Query: 73 -------------GDHSSDNLQPSQLSWYNFVRAHFEGDFFSGRFCNRASLV-------- 111
+ S + + +E NR +L
Sbjct: 330 VGGGAPVAEELVRREKSRKVKKSRIEVFEEEKEGDWEDVPPIPPIFNRVALQEFTLVAAQ 389
Query: 112 SLDVESGGISDRPLDIPDPFHTLFGVAALTMLDPPTPDVLPVDPTYCMPRYVIERLNLNP 171
+GG+ D+P PD +HT ++ L++ L
Sbjct: 390 QDPGSTGGLRDKPGKRPDQYHTCNNLSGLSIAQ--HKMSHSPSTVSSNRLKFDASKGLPA 447
Query: 172 QR 173
+
Sbjct: 448 VK 449
Score = 48.8 bits (115), Expect = 2e-07
Identities = 24/147 (16%), Positives = 40/147 (27%), Gaps = 22/147 (14%)
Query: 8 KLDAINLSKAVEFILSCCNFDGGFGSRPGSESHAGLTYCCVGFLSITGHLHEIDADKLAW 67
K A EF + C DGGF G E TYC + ++ + +
Sbjct: 163 KDLAAARQSIYEFFMRCKRPDGGFVVCEGGEVDVRGTYCLLVVATLLDIITPELLHNVDK 222
Query: 68 WLAERGDHSSDNLQPSQLSWYNFVRAHFEGDF--FSGRFCNRASLVSLDVESGGISDRPL 125
+++ +EG F S F + S S +
Sbjct: 223 FVSA--------------------CQTYEGGFACASFPFPSVVPSTSAFPTSEPSCRVSM 262
Query: 126 DIPDPFHTLFGVAALTMLDPPTPDVLP 152
+T + + +L P
Sbjct: 263 AEAHGGYTSCSLNSHFLLTSVPLPSFP 289
Score = 43.8 bits (102), Expect = 1e-05
Identities = 16/73 (21%), Positives = 23/73 (31%), Gaps = 10/73 (13%)
Query: 8 KLDAINLSKAVEFILSCCNFDGGFGSRPG--SESHAGLTYCCVGFLSITGHLHE------ 59
LD + V +L + GGFG P H TY V L+I G+
Sbjct: 105 ALDQGTKDRVVSTLLHFLSPKGGFGGGPANSQIPHLLPTYASVCSLAIAGNDSSTGGWKD 164
Query: 60 --IDADKLAWWLA 70
+ +
Sbjct: 165 LAAARQSIYEFFM 177
>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 = 33.9 bits (77), Expect = 0.022
Identities = 26/141 (18%), Positives = 47/141 (33%), Gaps = 50/141 (35%)
Query: 51 LSITGHLHEIDADKLAWWLAERGDHSSDNLQPSQLSWYN----FVRAHFEGDFFSGRFCN 106
LSI+ + +++ ++ + H + ++S N V SG
Sbjct: 339 LSISN----LTQEQVQDYVNKTNSHLPAG-KQVEISLVNGAKNLV--------VSG---P 382
Query: 107 RASLVSLDVE------SGGI-------SDRP-------LDIPDPFHT--LFGVAALTMLD 144
SL L++ G+ S+R L + PFH+ L + L D
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 145 PPTPDV--------LPVDPTY 157
+V +PV T+
Sbjct: 443 LVKNNVSFNAKDIQIPVYDTF 463
Score = 26.9 bits (59), Expect = 5.0
Identities = 14/78 (17%), Positives = 22/78 (28%), Gaps = 32/78 (41%)
Query: 75 HSSDNLQPSQLSWY----NFVRAHFEGDFFSGRFCNRASLVSLDVESGGISDRPLDIPDP 130
+ S ++PS++ + N FE + G DI
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN----------------------DI--- 101
Query: 131 FHTLFGVAALTMLDPPTP 148
H L A L + T
Sbjct: 102 -HAL--AAKLLQENDTTL 116
>3dxp_A Putative acyl-COA dehydrogenase; protein kinase-like fold,
structural genomics, joint center structural genomics,
JCSG; 2.32A {Ralstonia eutropha JMP134}
Length = 359
Score = 26.9 bits (60), Expect = 3.6
Identities = 5/29 (17%), Positives = 10/29 (34%)
Query: 58 HEIDADKLAWWLAERGDHSSDNLQPSQLS 86
D + L W+ + + + L Q
Sbjct: 19 QRFDTEALEAWMRQHVEGFAGPLSVEQFK 47
>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 = 26.4 bits (57), Expect = 7.8
Identities = 26/141 (18%), Positives = 39/141 (27%), Gaps = 47/141 (33%)
Query: 57 LHEIDADKLAWWLAERGDHSSDNLQPSQLSWYNFVRAHFEGDFFSGRFCNRASLVSLDVE 116
L++ID + R DHSS+ S +R + LV L+V+
Sbjct: 206 LYQIDPN-----WTSRSDHSSNIKLRIH-SIQAELR-----RLLKSKPYENCLLVLLNVQ 254
Query: 117 SGGISDRPLDIPDPF----HTLFGVAALTMLDPPTPDVLPVDPTYCMPRYVIER------ 166
+ + F L LT D L T ++
Sbjct: 255 NA-------KAWNAFNLSCKIL-----LTTRFKQVTDFLSAATTT---HISLDHHSMTLT 299
Query: 167 -----------LNLNPQRLPP 176
L+ PQ LP
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPR 320
>3cbj_A Cathepsin B; cathepsin B, occluding loop, chagas disease, glyco
hydrolase, lysosome, protease, thiol protease, zymogen,
CYT vesicle; 1.80A {Homo sapiens} PDB: 3cbk_A 1gmy_A*
3ai8_B* 3k9m_A 1the_A* 1cpj_A* 1cte_A 2dcc_A* 2dc6_A*
1ito_A* 2dc8_A* 2dc9_A* 2dca_A* 2dcb_A* 2dc7_A* 2dcd_A*
1qdq_A* 1csb_B* 1huc_B 2ipp_B ...
Length = 266
Score = 25.7 bits (57), Expect = 8.8
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 7 GKLDAINLSKAVEFILSCCNFDGGFGSRPGSESHA 41
++ +S E +L+CC G G G + A
Sbjct: 53 NAHVSVEVS--AEDLLTCCGSMCGDGCNGGYPAEA 85
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
0.323 0.142 0.464
Gapped
Lambda K H
0.267 0.0779 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,919,784
Number of extensions: 168908
Number of successful extensions: 375
Number of sequences better than 10.0: 1
Number of HSP's gapped: 348
Number of HSP's successfully gapped: 27
Length of query: 177
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 90
Effective length of database: 4,272,666
Effective search space: 384539940
Effective search space used: 384539940
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.5 bits)