RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17782
(256 letters)
>2jk9_A SPRY domain-containing SOCS box protein 1; transcription
regulation, transcription; 1.79A {Homo sapiens} PDB:
3f2o_A 2fnj_A 2v24_A 2ihs_A
Length = 212
Score = 145 bits (366), Expect = 3e-43
Identities = 46/184 (25%), Positives = 83/184 (45%), Gaps = 15/184 (8%)
Query: 30 FKYGCDDWWTWDRNDKSPDTKLFGKNHRTVNFHPTWSKGAAGIRGTRQLNNGRYYWELAT 89
Y +W+ ND+S + + ++ + + ++ IRG G + W++
Sbjct: 25 VSYDVQLLHSWNNNDRSLNVFV-KEDDKLIFHRHPVAQSTDAIRGKVGYTRGLHVWQITW 83
Query: 90 SQRLFGTSMMFGIGTRKARIHQNAFINLIGKDEHSWGLS-HKGLIFHGGK---------F 139
+ R GT + G+ T A +H + L+G + SWG + ++H GK F
Sbjct: 84 AMRQRGTHAVVGVATADAPLHSVGYTTLVGNNHESWGWDLGRNRLYHDGKNQPSKTYPAF 143
Query: 140 YNYTKPFPENEATRIGVLFDGIAGTLSFYKDGEYLGIAFQGLQHVQEPLYPMICSTAVKT 199
+ F + V D GTLSF DG+Y+G+AF+GL+ + LYP++ +
Sbjct: 144 LEPDETFIVPD--SFLVALDMDDGTLSFIVDGQYMGVAFRGLK--GKKLYPVVSAVWGHC 199
Query: 200 QISL 203
+I +
Sbjct: 200 EIRM 203
>3emw_A SPRY domain-containing SOCS box protein 2; apoptosis nucleus,
apoptosis, UBL conjugation pathwayc, CL transcription
regulation, transcription, phosphoprotein; 1.80A {Homo
sapiens} PDB: 3ek9_A
Length = 217
Score = 145 bits (366), Expect = 3e-43
Identities = 49/195 (25%), Positives = 81/195 (41%), Gaps = 11/195 (5%)
Query: 16 PTPLGLESSSMADMFKYGCDDWWTWDRNDKSPDTKLFGKNHRTVNFHPTWSKGAAGIRGT 75
P GLE A G W+ D S + ++ + P ++ G RG
Sbjct: 22 SMPEGLEELLSAPPPDLGAQRRHGWNPKDCSENIEV-KEGGLYFERRP-VAQSTDGARGK 79
Query: 76 RQLNNGRYYWELATSQRLFGTSMMFGIGTRKARIHQNAFINLIGKDEHSWGLS-HKGLIF 134
R + G + WE++ GT + G+ T A + + + L+G + SWG +G ++
Sbjct: 80 RGYSRGLHAWEISWPLEQRGTHAVVGVATALAPLQTDHYAALLGSNSESWGWDIGRGKLY 139
Query: 135 HGGKFYN------YTKPFPENEATRIGVLFDGIAGTLSFYKDGEYLGIAFQGLQHVQEPL 188
H K T+ R+ V+ D GTL + G YLG AF+GL+ L
Sbjct: 140 HQSKGPGAPQYPAGTQGEQLEVPERLLVVLDMEEGTLGYAIGGTYLGPAFRGLK--GRTL 197
Query: 189 YPMICSTAVKTQISL 203
YP + + + Q+ +
Sbjct: 198 YPAVSAVWGQCQVRI 212
>2afj_A Gene rich cluster, C9 gene; beta sandwich, gene regulation; NMR
{Mus musculus} SCOP: b.29.1.22
Length = 226
Score = 143 bits (361), Expect = 2e-42
Identities = 42/178 (23%), Positives = 75/178 (42%), Gaps = 11/178 (6%)
Query: 33 GCDDWWTWDRNDKSPDTKLFGKNHRTVNFHPTWSKGAAGIRGTRQLNNGRYYWELATSQR 92
W+ D S + + + P ++ G+RG R + G + WE++
Sbjct: 36 VAQRHHGWNPKDCSENIDV-KEGGLCFERRP-VAQSTDGVRGKRGYSRGLHAWEISWPLE 93
Query: 93 LFGTSMMFGIGTRKARIHQNAFINLIGKDEHSWGLS-HKGLIFHGGKFYNYTKPFPENEA 151
GT + G+ T A + + + L+G + SWG +G ++H K + +
Sbjct: 94 QRGTHAVVGVATALAPLQADHYAALLGSNSESWGWDIGRGKLYHQSKGLEAPQYPAGPQG 153
Query: 152 ------TRIGVLFDGIAGTLSFYKDGEYLGIAFQGLQHVQEPLYPMICSTAVKTQISL 203
R+ V+ D GTL + G YLG AF+GL+ LYP + + + Q+ +
Sbjct: 154 EQLVVPERLLVVLDMEEGTLGYSIGGTYLGPAFRGLKG--RTLYPSVSAVWGQCQVRI 209
>3toj_A SET1/ASH2 histone methyltransferase complex subun; transcription,
SPRY domain, prote binding, histone methylation, RBBP5,
DPY-30, nuclear; 2.07A {Homo sapiens}
Length = 213
Score = 92.6 bits (230), Expect = 4e-23
Identities = 33/165 (20%), Positives = 65/165 (39%), Gaps = 23/165 (13%)
Query: 38 WTWDRNDKSPDTKLFGKNHRTVNFHPTWSKGAAGIRGTRQLNNGRYYWELATSQRLFGTS 97
+D++P K+ + TV KG + +R + + G +Y+E+ + T+
Sbjct: 13 VLLALHDRAPQLKI-SDDRLTVVGE----KGYSMVRASHGVRKGAWYFEITVDEMPPDTA 67
Query: 98 MMFGIGTRKARIHQNAFINLIGKDEHSWGL-SHKGLIFHGGKFYNYTKPFPENEATRIGV 156
G + +G D+ S+ S KG FH +Y+ + + + +G
Sbjct: 68 ARLGWSQPLGNLQA-----PLGYDKFSYSWRSKKGTKFHQSIGKHYSSGYGQGDV--LGF 120
Query: 157 LFDGIAGTLS--------FYKDGEYLGIAFQGLQHVQEPLYPMIC 193
+ T+S FYK+G G+A++ + +P I
Sbjct: 121 YINLPEDTISGRGSSEIIFYKNGVNQGVAYKDIFE--GVYFPAIS 163
>2yyo_A SPRY domain-containing protein 3; NPPSFA, national project on
protein structural and functional analyses; 2.00A {Homo
sapiens}
Length = 171
Score = 84.2 bits (208), Expect = 2e-20
Identities = 25/158 (15%), Positives = 54/158 (34%), Gaps = 18/158 (11%)
Query: 42 RNDKSPDTKLFGKNHRTVNFHPTWSKGAAGIRGTRQLNNGRYYWELATSQRLFGTSMMFG 101
+ S + + T+++H S +R L Y+E++ ++ G
Sbjct: 2 SSGSSGFKHIL-VDGDTLSYHGN-SGEVGCYVASRPLTKDSNYFEVSIVDSGVRGTIAVG 59
Query: 102 IGTRKARIHQNAFINLIGKDEHSWGL-SHKGLIFHG-GKFYNYTKPFPENEATRIGV--- 156
+ + + G S + G +++G K + + RIG
Sbjct: 60 LVPQYYSLDHQ-----PGWLPDSVAYHADDGKLYNGRAKGRQFGSKCNSGD--RIGCGIE 112
Query: 157 --LFDGIAGTLSFYKDGEYLGIAFQGLQHVQEPLYPMI 192
FD + F K+G+ +G + + L+P +
Sbjct: 113 PVSFDVQTAQIFFTKNGKRVGSTIMPMSP--DGLFPAV 148
>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 = 37.5 bits (86), Expect = 0.004
Identities = 31/270 (11%), Positives = 65/270 (24%), Gaps = 95/270 (35%)
Query: 3 DHQVNGVLLAFPSPTPLGLESSSMADMF-------KYGCDDWWTWDR-----NDKSPDTK 50
V+G L F L + M F Y + S T+
Sbjct: 58 KDAVSGTLRLF---WTLLSKQEEMVQKFVEEVLRINYK----FLMSPIKTEQRQPSMMTR 110
Query: 51 LFGKNH-RTVNFHPTWSKGAAGIRGTRQLNNGRYYWELATSQRLFGTSMMFGIGTRKARI 109
++ + R N + ++K ++ + Y +L
Sbjct: 111 MYIEQRDRLYNDNQVFAK--------YNVSRLQPYLKL---------------------- 140
Query: 110 HQNAFINLIGKDEHSWGLSHKGLIFHG----GK---------FYNYTKPFPENEATRIGV 156
+ A + L K ++ G GK Y
Sbjct: 141 -RQALLELR---------PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD--------- 181
Query: 157 LFDGIA-GTLSFYKDGEYLGIAFQGLQHVQEPLYPMICSTAVKTQISLEVAR---RDFIN 212
I L E + Q L + +P + + ++ + + R +
Sbjct: 182 --FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 213 LQDRCRSIIIKTMNQADLDLVKLPTPIRTY 242
+ +++ L V+ +
Sbjct: 240 SKPYENCLLV-------LLNVQNAKAWNAF 262
>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 = 34.3 bits (78), Expect = 0.044
Identities = 24/117 (20%), Positives = 40/117 (34%), Gaps = 26/117 (22%)
Query: 15 SP--TPLGLESSS---MADMFKYGCDDWWTWDRND-KSP--DTKLFGKNHRTVNFHPTWS 66
SP + L L +S D+ K + +++ D + P DT G + R +
Sbjct: 425 SPFHSHL-LVPASDLINKDLVK----NNVSFNAKDIQIPVYDTFD-GSDLRVL------- 471
Query: 67 KGAAGIRGTRQLNNGRYYWELATSQRL-----FGTSMMFGIGTRKARIHQNAFINLI 118
G+ R + WE T + FG G+G R + +I
Sbjct: 472 SGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVI 528
Score = 33.9 bits (77), Expect = 0.057
Identities = 45/299 (15%), Positives = 79/299 (26%), Gaps = 133/299 (44%)
Query: 40 WDRNDKSPDTKLFG--------KNHRTVNFHPTWSKGAAGIRGTRQLNNGRYYWELATSQ 91
W+R D G N + H KG + R+ Y
Sbjct: 1646 WNRADNHFKDTY-GFSILDIVINNPVNLTIHFGGEKG----KRIRE----NY-------- 1688
Query: 92 RLFGTSMMFGIGTRKARIHQNAFINLIGKDEHSWGLSHKGLIFHG--GKFY--NYTKP-- 145
++M+F + F + +EHS F G +T+P
Sbjct: 1689 ----SAMIFETIVDGKLKTEKIFKEI---NEHS-----TSYTFRSEKGLLSATQFTQPAL 1736
Query: 146 ----------------FPENEATRIGVLFDG-----------IAGTLSFYKDGEYL---- 174
P + F G +A +S + +
Sbjct: 1737 TLMEKAAFEDLKSKGLIPADAT------FAGHSLGEYAALASLADVMSI-ESLVEVVFYR 1789
Query: 175 GIAFQ--------GLQHV---------------QEPLYPMICSTAVKTQISLEVARRDFI 211
G+ Q G + QE L ++ +T +E+
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV----- 1844
Query: 212 NL-----Q----------DRCRSII--IKTMNQADLDLVKLPTPIRTYIEEAMVKGFLM 253
N Q D +++ IK +D+++L + +EE V+G L
Sbjct: 1845 NYNVENQQYVAAGDLRALDTVTNVLNFIKLQK---IDIIELQKSLS--LEE--VEGHLF 1896
Score = 31.2 bits (70), Expect = 0.43
Identities = 33/202 (16%), Positives = 56/202 (27%), Gaps = 73/202 (36%)
Query: 18 PLGLESSSMADMFKYGCD--DWWTWDRNDKSPDT-------------------------K 50
L + +F G + +W + +PD K
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWL--ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAK 254
Query: 51 LFGKNHRTVNFHPTWSKG-------AAGIRGTRQLNNGRYYWELATSQRLFGTSMMFGIG 103
L G + + + G A I T WE +++F IG
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS-------WESFFVSVRKAITVLFFIG 307
Query: 104 TRKARIHQNAFINL-----IGKD--EH-----SW-----GLSHKGLIFHGGKFYNYTKPF 146
R A+ N I +D E+ S L+ + + + K N
Sbjct: 308 VRC----YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT-N--SHL 360
Query: 147 PENEATRIGVLFDG-----IAG 163
P + I L +G ++G
Sbjct: 361 PAGKQVEIS-LVNGAKNLVVSG 381
Score = 30.0 bits (67), Expect = 0.91
Identities = 26/151 (17%), Positives = 43/151 (28%), Gaps = 28/151 (18%)
Query: 99 MFGIGTRKARIHQNAFINLIGKDEHSWGLSHKGLIFHGG----KFYNYTKPFPENEATRI 154
M TR + G EH + F +F K PE T
Sbjct: 1 MDAYSTRPLTLSH-------GSLEHVLLVPT-ASFFIASQLQEQF---NKILPE--PTEG 47
Query: 155 GVLFDGIAGTLSFYKDGEYLG-IAFQGLQHVQEPLYPMICSTAVKTQISLEVARRDFINL 213
D G++LG ++ ++ + L ++
Sbjct: 48 FAADDEPTTPAELV--GKFLGYVSSLVEPSKVGQFDQVL-------NLCLTEFENCYLEG 98
Query: 214 QDRCRSIIIKTMNQADLDLVKLPTPIRTYIE 244
D ++ K + + D LVK I+ YI
Sbjct: 99 ND-IHALAAKLLQENDTTLVKTKELIKNYIT 128
>3kb5_A Tripartite motif-containing protein 72; B30.2, gustavus, SPRY,
TRIM21, TRIM72, PRY, high resolution, Mg53; 1.50A {Homo
sapiens}
Length = 193
Score = 33.0 bits (76), Expect = 0.049
Identities = 32/136 (23%), Positives = 46/136 (33%), Gaps = 33/136 (24%)
Query: 74 GTRQLNNGRYYWELATSQRLFGTSMMFGIG------TRKARIHQNAFINLIGKDEHSWGL 127
+QL+ G +YWE+ G + +G R+ R+H + W L
Sbjct: 59 AHQQLSEGEHYWEVDV-----GDKPRWALGVIAAEAPRRGRLHAVP-------SQGLWLL 106
Query: 128 SHKGLIFHGGKFYNY--------TKPFPENEATRIGVLFDGIAGTLSFY--KDGEYLGIA 177
GK PE TRIG+ G LSFY D + L
Sbjct: 107 G-----LREGKILEAHVEAKEPRALRSPERRPTRIGLYLSFGDGVLSFYDASDADALVPL 161
Query: 178 FQGLQHVQEPLYPMIC 193
F + + P+YP
Sbjct: 162 FAFHERLPRPVYPFFD 177
>2izv_A Suppressor of cytokine signaling 4; signal transduction inhibitor,
growth regulation, signal transduction, SH2 domain,
nuclear protein; 2.55A {Homo sapiens} SCOP: a.271.1.1
d.93.1.1
Length = 187
Score = 32.9 bits (75), Expect = 0.060
Identities = 9/33 (27%), Positives = 19/33 (57%)
Query: 213 LQDRCRSIIIKTMNQADLDLVKLPTPIRTYIEE 245
LQ CR++I +D + +P+ ++ Y++E
Sbjct: 139 LQHICRTVICNCTTYDGIDALPIPSSMKLYLKE 171
>2c9w_A Suppressor of cytokine signaling 2; growth regulation, SH2 domain,
signal transduction inhibitor nuclear protein; 1.9A
{Homo sapiens} SCOP: a.271.1.1 d.93.1.1
Length = 169
Score = 31.3 bits (71), Expect = 0.16
Identities = 21/112 (18%), Positives = 38/112 (33%), Gaps = 17/112 (15%)
Query: 134 FHGGKFYNYTKPFPENEATRIGVLFDGIAGTLSFYKDGEYLGIAFQGLQHVQEPLYPMIC 193
+ GKF + +++ + FD + + +Y P P
Sbjct: 70 YQDGKFRLDSIICVKSKLKQ----FDSVVHLIDYYVQ--------MCKDKRTGPEAPRNG 117
Query: 194 STAVKTQISLEVARRDFINLQDRCRSIIIKTMNQADLDLVKLPTPIRTYIEE 245
+ + L +LQ CR I K + + LPT ++ Y+EE
Sbjct: 118 TVHLYLTKPL---YTSAPSLQHLCRLTINKCTGA--IWGLPLPTRLKDYLEE 164
>4dqa_A Uncharacterized protein; two domains structure, DUF 1735,
laminin_G_3 concanavalin A- lectin/glucanases
superfamily domain; HET: MSE; 1.50A {Bacteroides ovatus}
Length = 355
Score = 31.6 bits (71), Expect = 0.24
Identities = 13/41 (31%), Positives = 18/41 (43%)
Query: 132 LIFHGGKFYNYTKPFPENEATRIGVLFDGIAGTLSFYKDGE 172
L GG+ Y TKP N + + +D G Y +GE
Sbjct: 204 LEVAGGQNYRVTKPLLTNRWYHVALTYDQPTGKTGIYVNGE 244
>2vok_A 52 kDa RO protein; polymorphism, immune system, metal-binding,
tripartite motif (TRIM) protein, SPRY systemic lupus
erythematosus, zinc, B30.2; 1.30A {Mus musculus} PDB:
2vol_B* 2iwg_B*
Length = 188
Score = 30.6 bits (70), Expect = 0.36
Identities = 23/137 (16%), Positives = 42/137 (30%), Gaps = 40/137 (29%)
Query: 74 GTRQLNNGRYYWELATSQRLFGTSMMFGIG------TRKARIHQNAFINLIGKDEHSWGL 127
G ++ ++G+ YWE+ + +G RK + + + W +
Sbjct: 55 GAQRFSSGKMYWEVDV-----TQKEAWDLGVCRDSVQRKGQFSLSP-------ENGFWTI 102
Query: 128 SHKGLIFHGGKFYNYTKP----FPENEATRIGVLFDGIAGTLSFYKDGE-------YLGI 176
+ T P + +IG+ D AG +SFY + +
Sbjct: 103 W-----LWQDSYEAGTSPQTTLHIQVPPCQIGIFVDYEAGVVSFYNITDHGSLIYTFSEC 157
Query: 177 AFQGLQHVQEPLYPMIC 193
F PL P
Sbjct: 158 VF------AGPLRPFFN 168
>2lm3_A TRIM5alpha, tripartite motif-containing protein 5; ligase; NMR
{Macaca mulatta}
Length = 208
Score = 30.0 bits (68), Expect = 0.58
Identities = 26/139 (18%), Positives = 54/139 (38%), Gaps = 29/139 (20%)
Query: 74 GTRQLNNGRYYWELATSQRLFGTSMMFGI---GTRKARIHQNAFINLIGKDEHSWGLSHK 130
G++ + +G++YWE+ S++ ++ + G+ A + N W + +
Sbjct: 65 GSQSITSGKHYWEVDVSKK---SAWILGVCAGFQSDAMYNIEQNENY-QPKYGYWVIGLQ 120
Query: 131 G----LIFHGGKFYNYTKPF-----PENEATRIGVLFDGIAGTLSFY--KDGEYL----- 174
+F G + PF R+GV D A T+SF+ + +L
Sbjct: 121 EGVKYSVFQDGSSHTPFAPFIVPLSVIICPDRVGVFVDYEACTVSFFNITNHGFLIYKFS 180
Query: 175 GIAFQGLQHVQEPLYPMIC 193
+F +P++P +
Sbjct: 181 QCSF------SKPVFPYLN 193
>2wl1_A Pyrin, marenostrin; amyloidosis, polymorphism, cytoskeleton,
actin-binding inflammatory response, metal-binding,
signaling protein; 1.35A {Homo sapiens}
Length = 191
Score = 29.5 bits (67), Expect = 0.77
Identities = 25/156 (16%), Positives = 50/156 (32%), Gaps = 34/156 (21%)
Query: 52 FGKNHRTVNFHPTWSKGAAGIRGTRQLNNGRYYWELATSQRLFGTSMMFGI----GTRKA 107
G + P + G+ +GR YWE+ T+ + G +RK
Sbjct: 37 LGNKWERLPDGPQRFDSCIIVLGSPSFLSGRRYWEVEVGD---KTAWILGACKTSISRKG 93
Query: 108 RIHQNAFINLIGKDEHSWGLSHKGLIFHGGKFYNYTKP----FPENEATRIGVLFDGIAG 163
+ + + W + + ++ + P + R+G+ D G
Sbjct: 94 NMTLSP-------ENGYWVVI----MMKENEYQASSVPPTRLLIKEPPKRVGIFVDYRVG 142
Query: 164 TLSFY--KDGEYL----GIAFQGLQHVQEPLYPMIC 193
++SFY ++ +F PL P+
Sbjct: 143 SISFYNVTARSHIYTFASCSF------SGPLQPIFS 172
>2fbe_A Predicted: similar to RET finger protein-like 1; dimer, jellyroll
beta-sandwich fold, unknown function; 2.52A {Homo
sapiens} SCOP: b.29.1.22
Length = 201
Score = 29.1 bits (66), Expect = 0.95
Identities = 24/135 (17%), Positives = 45/135 (33%), Gaps = 36/135 (26%)
Query: 74 GTRQLNNGRYYWELATSQRLFGTSMMFGI----GTRKARIHQNAFINLIGKDEHSWGLSH 129
GT + +GR+YWE+ G+ R+ +I ++ + +
Sbjct: 56 GTPRFTSGRHYWEVDVGT---SQVWDVGVCKESVNRQGKIELSS-------EHGFLTVG- 104
Query: 130 KGLIFHGGKFYN-----YTKPFPENEATRIGVLFDGIAGTLSFY--KDGEYL----GIAF 178
GK + T + + R+G+ D +++FY DG ++ I
Sbjct: 105 ----CREGKVFAASTVPMTPLWVSPQLHRVGIFLDVGMRSIAFYNVSDGCHIYTFIEIPV 160
Query: 179 QGLQHVQEPLYPMIC 193
EP P
Sbjct: 161 ------CEPWRPFFA 169
>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, protein structure
initiative, nysgrc; 1.90A {Corynebacterium glutamicum}
PDB: 3q2q_A*
Length = 360
Score = 28.8 bits (65), Expect = 1.9
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
A +G + G L + G +G+ FQ
Sbjct: 207 AGYLGAMHAGAAPEHIDALKNF--GAAVGMIFQ 237
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 28.0 bits (63), Expect = 3.2
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
+ IG G +A S + G LG A+Q
Sbjct: 174 SASIGAYTGGAEEELAERFSHF--GNALGTAYQ 204
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 27.3 bits (61), Expect = 4.2
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 5/32 (15%)
Query: 151 ATRIGVLFDG---IAGTLSFYKDGEYLGIAFQ 179
A + ++ G + T G LGI +Q
Sbjct: 172 ALVMPLVILGRRELIETAKKL--GTKLGILYQ 201
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 27.3 bits (61), Expect = 5.0
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
A + GVL +A + G G+AFQ
Sbjct: 192 AAKWGVLSVSDDRGLAEAAWNF--GMAAGVAFQ 222
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase,
thermophilic; 2.28A {Thermotoga maritima} SCOP:
a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A
1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A
1vg7_A
Length = 299
Score = 26.8 bits (60), Expect = 6.5
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 3/30 (10%)
Query: 151 ATRIGVLFDG-IAGTLSFYKDGEYLGIAFQ 179
A ++ L +G + L G +G +Q
Sbjct: 174 ALQLPALLEGELGEDLYNL--GVTIGTIYQ 201
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 26.8 bits (60), Expect = 7.0
Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
AT +G + G L Y G+ LGIAFQ
Sbjct: 187 ATEVGGIIGGAPEDQVQALFDY--GDALGIAFQ 217
>1ii2_A Phosphoenolpyruvate carboxykinase; phosphate binding loop, lyase;
2.00A {Trypanosoma cruzi} SCOP: c.91.1.1 c.109.1.1
Length = 524
Score = 26.9 bits (60), Expect = 7.3
Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 15/88 (17%)
Query: 96 TSMMFGI-GTRKARIHQNAFINLIGKDEHSWGLSHKGLIFHGGKFYNYTKPF-PENE--- 150
++ FG+ GT K + + NLIG DEH W + +G+ G Y P+ E
Sbjct: 215 VTVFFGLSGTGKTTLSADPHRNLIGDDEHVW--TDRGVFNIEGGCYAKAIGLNPKTEKDI 272
Query: 151 --ATRIG-----VLFDGIAGTLSFYKDG 171
A R G + D G + + D
Sbjct: 273 YDAVRFGAVAENCVLDKRTGEI-DFYDE 299
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 26.8 bits (60), Expect = 8.0
Identities = 5/33 (15%), Positives = 13/33 (39%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
+ +G L + + G +G+++Q
Sbjct: 178 SCHLGALSSQLDEQSTYHIKQF--GHCIGMSYQ 208
>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices
fold, chroloplast, TRAN isoprenoid biosynthetic process;
2.60A {Arabidopsis thaliana} PDB: 3aq0_A*
Length = 348
Score = 26.6 bits (59), Expect = 8.0
Identities = 9/33 (27%), Positives = 14/33 (42%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
+ + + G +A Y G LG+AFQ
Sbjct: 201 SCKAVAVLTGQTAEVAVLAFEY--GRNLGLAFQ 231
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 26.6 bits (58), Expect = 8.2
Identities = 4/16 (25%), Positives = 6/16 (37%), Gaps = 5/16 (31%)
Query: 37 WWTWDRNDKSPDTKLF 52
WD +KL+
Sbjct: 205 CTFWDA-----ISKLY 215
>1ytm_A Phosphoenolpyruvate carboxykinase [ATP], phosphoenolpyruvate;
domain closure, nucleotide binding; HET: ATP; 2.20A
{Anaerobiospirillum succiniciproducens} PDB: 1yvy_A
Length = 532
Score = 26.6 bits (59), Expect = 9.8
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 96 TSMMFGI-GTRKARIHQNAFINLIGKDEHSWG 126
T++ FG+ GT K + + LIG DEH W
Sbjct: 237 TAIFFGLSGTGKTTLSTDPKRLLIGDDEHGWD 268
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, PR structure
initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus
brevis} PDB: 3n3d_A
Length = 334
Score = 26.4 bits (59), Expect = 9.9
Identities = 6/33 (18%), Positives = 10/33 (30%), Gaps = 6/33 (18%)
Query: 151 ATRIGVLFDG----IAGTLSFYKDGEYLGIAFQ 179
+ G G + G +G A+Q
Sbjct: 191 SCYQGAQLAGAPQSVIDRTRDI--GIAIGCAYQ 221
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
0.322 0.138 0.436
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,037,350
Number of extensions: 232266
Number of successful extensions: 494
Number of sequences better than 10.0: 1
Number of HSP's gapped: 477
Number of HSP's successfully gapped: 34
Length of query: 256
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 165
Effective length of database: 4,160,982
Effective search space: 686562030
Effective search space used: 686562030
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: 56 (25.4 bits)