RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15484
(1233 letters)
>3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding,
endonuclease, HEL hydrolase, nucleotide-binding,
phosphoprotein, RN binding; HET: MSE; 1.68A {Mus
musculus} PDB: 3c4t_A 2eb1_A
Length = 265
Score = 293 bits (753), Expect = 3e-91
Identities = 165/265 (62%), Positives = 205/265 (77%), Gaps = 3/265 (1%)
Query: 966 PESKHLSDVLLDGFDKFEESINYRFKDKSYLLQAMTHASYFLNTLTDCYQRLEFLGDAIL 1025
P+++ + L+ GF+ FE+ INYRFK+K+YLLQA THASY NT+TDCYQRLEFLGDAIL
Sbjct: 2 PDAEKTLNHLISGFETFEKKINYRFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDAIL 61
Query: 1026 DYLITRHLYEDERAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRF 1085
DYLIT+HLYED R HSPG LTDLRSALVNN IFASLAV+ +H +FK +SP L VI F
Sbjct: 62 DYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDF 121
Query: 1086 VKMQAENDFTLNQEYYLMEGECDE--AEDIEVPKALGDLFESVAGAIYLDSGMSLDTVWK 1143
VK Q E + + L E DE EDIEVPKA+GD+FES+AGAIY+DSGMSL+ VW+
Sbjct: 122 VKFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLEVVWQ 181
Query: 1144 VYYEIMKSEIERLSVSVPKSPIRELLELEPENARFSKPEKLADGRRVRVTVEVFGKGSYK 1203
VYY +M+ IE+ S +VP+SP+RELLE+EPE A+FS E+ DG +VRVTVEV GKG +K
Sbjct: 182 VYYPMMQPLIEKFSANVPRSPVRELLEMEPETAKFSPAERTYDG-KVRVTVEVVGKGKFK 240
Query: 1204 GIGRNYCIAKCTAAKCALKHLKSAK 1228
G+GR+Y IAK AA+ AL+ LK+ +
Sbjct: 241 GVGRSYRIAKSAAARRALRSLKANQ 265
Score = 64.8 bits (158), Expect = 2e-11
Identities = 33/171 (19%), Positives = 51/171 (29%), Gaps = 40/171 (23%)
Query: 774 ENHTGPSPKRLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKV 833
N +RLE +GD+ L Y IT LY G L+ LRS V+N L +
Sbjct: 43 YNTITDCYQRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYD 102
Query: 834 FGESMIATKFEPRDNWLPPGYFVPKYLETALIEAGFPASLWNCLSLPNLKELSPEKVLEI 893
+ + A E FV LE ++ + +++ K +
Sbjct: 103 YHKYFKAVSPELFHV---IDDFVKFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAM-- 157
Query: 894 IKQKCVDLDCTVDMNVQSVVPYNLVTQHSIPDKSIADCVEALIGAYLIECG 944
D E+L GA ++ G
Sbjct: 158 -----------------------------------GDIFESLAGAIYMDSG 173
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic
protein structure initiative; 2.10A {Mycobacterium
tuberculosis}
Length = 242
Score = 125 bits (317), Expect = 2e-32
Identities = 65/271 (23%), Positives = 94/271 (34%), Gaps = 59/271 (21%)
Query: 979 FDKFEESINYRFKDKSYLLQAMTHASY-FLNTLTDCYQRLEFLGDAILDYLITRHLYEDE 1037
+++ D+ L A+TH SY + N +RLEFLGDA+L IT L+
Sbjct: 7 RQPLLDALGVDLPDE-LLSLALTHRSYAYENGGLPTNERLEFLGDAVLGLTITDALFHRH 65
Query: 1038 RAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAENDFTLN 1097
S G L LR+++VN A +A RL H+
Sbjct: 66 PDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHV----------------------- 102
Query: 1098 QEYYLMEGECDEAEDIEV------PKALGDLFESVAGAIYLDSGMSLDTVWKVYYEIMKS 1151
L GE L D ES+ GAIYL G ++ +V +
Sbjct: 103 ---LLGRGE-------ANTGGADKSSILADGMESLLGAIYLQHG--MEKAREVILRLFGP 150
Query: 1152 EIERLSVSV----PKSPIRELLELEPENARFSK-PEKLADG------RRVRVTVEVFGKG 1200
++ K+ ++EL AR P L + V V
Sbjct: 151 LLDAAPTLGAGLDWKTSLQELTA-----ARGLGAPSYLVTSTGPDHDKEFTAVVVVMDSE 205
Query: 1201 SYKGIGRNYCIAKCTAAKCALKHLKSAKPAD 1231
G+GR+ A+ AA A K L+ A
Sbjct: 206 YGSGVGRSKKEAEQKAAAAAWKALEVLDNAM 236
Score = 52.6 bits (127), Expect = 2e-07
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 12/76 (15%)
Query: 768 DFQPDL------------ENHTGPSPKRLETIGDSFLKYAITIFLYCTYPNVHEGKLSHL 815
D +L EN P+ +RLE +GD+ L IT L+ +P+ EG L+ L
Sbjct: 17 DLPDELLSLALTHRSYAYENGGLPTNERLEFLGDAVLGLTITDALFHRHPDRSEGDLAKL 76
Query: 816 RSKQVSNYNLFKLGKQ 831
R+ V+ L + ++
Sbjct: 77 RASVVNTQALADVARR 92
Score = 29.5 bits (67), Expect = 5.8
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 926 KSI-ADCVEALIGAYLIECG 944
SI AD +E+L+GA ++ G
Sbjct: 117 SSILADGMESLLGAIYLQHG 136
>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid,
structura genomics; 2.21A {Campylobacter jejuni subsp}
Length = 248
Score = 124 bits (314), Expect = 5e-32
Identities = 62/260 (23%), Positives = 115/260 (44%), Gaps = 52/260 (20%)
Query: 979 FDKFEESINYRFKDKSYLLQAMTHASYFLNTLTDCYQRLEFLGDAILDYLITRHLYEDER 1038
+K E+S+ Y FKDK+ L+ A+TH S+ + +RLEFLGDA+LD ++ +L+
Sbjct: 28 IEKLEQSLTYEFKDKNLLIHALTHKSF---KKSYNNERLEFLGDAVLDLVVGEYLFHKFA 84
Query: 1039 AHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAENDFTLNQ 1098
+ G L+ LR+ALVN FA +A L F +S E
Sbjct: 85 KDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL-MSVA--E------------------ 123
Query: 1099 EYYLMEGECDEAEDIEVPKALGDLFESVAGAIYLDSGMSLDTVWKVYYEIMKSEIERLSV 1158
G ++ P L D E++ GAI+L++G + + +++ ++
Sbjct: 124 ---ENNGGKEK------PSILSDALEAIIGAIHLEAG--FEFAKTIALRLIEKNFPQIDA 172
Query: 1159 SV----PKSPIRELLELEPENARFSK-PE-KLADG------RRVRVTVEVFGKGSYKGIG 1206
+ K+ ++E+ + + + P+ + ++ + + + GK + I
Sbjct: 173 KILIKDYKTKLQEITQ-----GKIGQTPQYETVRAFGPDHLKQFEIALMLDGKELARAIA 227
Query: 1207 RNYCIAKCTAAKCALKHLKS 1226
+ A+ AAK AL+ L +
Sbjct: 228 GSKKEAQQMAAKIALEKLGA 247
Score = 48.7 bits (117), Expect = 3e-06
Identities = 16/57 (28%), Positives = 29/57 (50%)
Query: 783 RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGESMI 839
RLE +GD+ L + +L+ + EG LS LR+ V+ + K+ G+ ++
Sbjct: 62 RLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 118
Score = 29.9 bits (68), Expect = 5.1
Identities = 7/17 (41%), Positives = 12/17 (70%), Gaps = 1/17 (5%)
Query: 925 DKSIADCVEALIGA-YL 940
++D +EA+IGA +L
Sbjct: 132 PSILSDALEAIIGAIHL 148
>1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG, PSI,
protein structure initiative, joint center for structural
genomics; 2.00A {Thermotoga maritima} SCOP: a.149.1.1
d.50.1.1
Length = 252
Score = 124 bits (314), Expect = 6e-32
Identities = 59/290 (20%), Positives = 109/290 (37%), Gaps = 69/290 (23%)
Query: 964 TNPESKHLSDVLLDGFDKFEESINYRFKDKSYLLQAMTHASY------FLNTLTDCYQRL 1017
+ H+++ ++F++ FK++ L +A+ H+SY + ++L
Sbjct: 6 IHHHHHHMNESERKIVEEFQKETGINFKNEELLFRALCHSSYANEQNQAGRKDVESNEKL 65
Query: 1018 EFLGDAILDYLITRHLYEDERAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPG 1077
EFLGDA+L+ + LY+ G L ++SA + + A ++ ++ F L G
Sbjct: 66 EFLGDAVLELFVCEILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLF-LGKG 124
Query: 1078 LHEVIQRFVKMQAENDFTLNQEYYLMEGECDEAEDIEVPKALGDLFESVAGAIYLDSGMS 1137
E G D L D FE++ AIYLD G
Sbjct: 125 --E---------------------EKTGGRDR------DSILADAFEALLAAIYLDQGY- 154
Query: 1138 LDTVWKVYYEIMKSEIERLSVSV----PKSPIRELL--------------ELEPENAR-F 1178
+ + +++ + + IE++ K+ ++E++ + + R F
Sbjct: 155 -EKIKELFEQEFEFYIEKIMKGEMLFDYKTALQEIVQSEHKVPPEYILVRTEKNDGDRIF 213
Query: 1179 SKPEKLADGRRVRVTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKSAK 1228
V V V GK G GR A+ AA+ A + L +
Sbjct: 214 ------------VVEVRVNGKTIATGKGRTKKEAEKEAARIAYEKLLKER 251
Score = 52.2 bits (126), Expect = 3e-07
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 783 RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGESMI 839
+LE +GD+ L+ + LY YP G L+ ++S S L + ++ G+ +
Sbjct: 64 KLEFLGDAVLELFVCEILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLF 120
Score = 29.5 bits (67), Expect = 5.9
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 926 KSI-ADCVEALIGAYLIECG 944
SI AD EAL+ A ++ G
Sbjct: 134 DSILADAFEALLAAIYLDQG 153
>2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference, endonucleolytic
cleavage, hydrolase/RNA complex; 1.70A {Aquifex aeolicus}
SCOP: a.149.1.1 d.50.1.1 PDB: 1yyw_A 2nue_A 2nuf_A 1yyk_A
1yz9_A 1yyo_A 2ez6_A 1rc7_A 1i4s_A 1jfz_A 1rc5_A
Length = 221
Score = 116 bits (294), Expect = 1e-29
Identities = 63/271 (23%), Positives = 111/271 (40%), Gaps = 74/271 (27%)
Query: 979 FDKFEESINYRFKDKSYLLQAMTHASYFLNTLTDCYQRLEFLGDAILDYLITRHLYEDER 1038
++ E+ + Y FKDKS L +A+TH SY + + Y+ LEFLGDA++++ I L +
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSY---SKKEHYETLEFLGDALVNFFIVDLLVQYSP 60
Query: 1039 AHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAENDFTLNQ 1098
G L+ L++ L++ F LA +L H F +
Sbjct: 61 NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIR-------------------------- 94
Query: 1099 EYYLMEGECDEAEDIEVPKALGDLFESVAGAIYLDSGMSLDTVWKV----YYEIMKSEIE 1154
+ G+ +GD+FE++ A+Y+DSG + ++ + E + S I+
Sbjct: 95 ---IKRGK-------INETIIGDVFEALWAAVYIDSGRDANFTRELFYKLFKEDILSAIK 144
Query: 1155 RLSVSV-PKS-------------PIRELLELE-PENAR-FSKPEKLADGRRVRVTVEVFG 1198
V K+ P L+ +E P + + F VE
Sbjct: 145 EGRVKKDYKTILQEITQKRWKERPEYRLISVEGPHHKKKF--------------IVEAKI 190
Query: 1199 KGSY-KGIGRNYCIAKCTAAKCALKHLKSAK 1228
K G G++ A+ AA+ +K L+ ++
Sbjct: 191 KEYRTLGEGKSKKEAEQRAAEELIKLLEESE 221
Score = 49.1 bits (118), Expect = 2e-06
Identities = 15/65 (23%), Positives = 29/65 (44%)
Query: 783 RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGESMIATK 842
LE +GD+ + + I L PN EG LS L++ +S L ++ + + +
Sbjct: 38 TLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKR 97
Query: 843 FEPRD 847
+ +
Sbjct: 98 GKINE 102
Score = 29.4 bits (67), Expect = 5.5
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 925 DKSIADCVEALIGAYLIECG 944
+ I D EAL A I+ G
Sbjct: 102 ETIIGDVFEALWAAVYIDSG 121
>2kou_A Dicer-like protein 4; ATP-binding, endonuclease, helicase,
hydrolase, nuclease, nucleotide-binding, nucleus, RNA-
binding; NMR {Arabidopsis thaliana}
Length = 102
Score = 111 bits (278), Expect = 5e-29
Identities = 26/95 (27%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 1 MDNAIFIVNRYCARLPSDIFTRLAPIITISEIKEDDSIMFTCSIRLPINSPLKRSVTGHK 60
++I ++ +YC+RLP D F + P + D+ C I LP N+P+ +
Sbjct: 3 GGSSISMMYKYCSRLPHDEFFQPKPEFQFKPV--DEFGGTICRITLPANAPI-SEIESSL 59
Query: 61 MPTKLLAWRIAAMEACRVLYELKELDNDLMPVTKE 95
+P+ A + A ++A L+ L L++ L+P +K+
Sbjct: 60 LPSTEAAKKDACLKAVHELHNLGVLNDFLLPDSKD 94
>3o2r_A Ribonuclease III; structural genomics, center for structural genomics
of infec diseases, csgid, nuclease domain, ribonuclase
III; HET: MLZ; 1.25A {Campylobacter jejuni subsp} PDB:
3o2r_B*
Length = 170
Score = 112 bits (283), Expect = 8e-29
Identities = 48/178 (26%), Positives = 81/178 (45%), Gaps = 35/178 (19%)
Query: 979 FDKFEESINYRFKDKSYLLQAMTHASYFLNTLTDCYQRLEFLGDAILDYLITRHLYEDER 1038
+K E+S+ Y FKDK+ L+ A+TH S+ + +RLEFLGDA+LD ++ +L+
Sbjct: 28 IEKLEQSLTYEFKDKNLLIHALTHKSF---KKSYNNERLEFLGDAVLDLVVGEYLFHKFA 84
Query: 1039 AHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAENDFTLNQ 1098
+ G L+ LR+ALVN FA +A L F +S
Sbjct: 85 KDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL-MSVA--------------------- 122
Query: 1099 EYYLMEGECDEAEDIEVPKALGDLFESVAGAIYLDSGMSLDTVWKVYYEIMKSEIERL 1156
G ++ P L D E++ GAI+L++G + + +++ ++
Sbjct: 123 --EENNGGKEK------PSILSDALEAIIGAIHLEAG--FEFAKTIALRLIEKNFPQI 170
Score = 49.1 bits (118), Expect = 9e-07
Identities = 16/57 (28%), Positives = 29/57 (50%)
Query: 783 RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGESMI 839
RLE +GD+ L + +L+ + EG LS LR+ V+ + K+ G+ ++
Sbjct: 62 RLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 118
Score = 29.9 bits (68), Expect = 2.9
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 925 DKSIADCVEALIGAYLIECG 944
++D +EA+IGA +E G
Sbjct: 132 PSILSDALEAIIGAIHLEAG 151
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A
{Vanderwaltozyma polyspora}
Length = 341
Score = 109 bits (275), Expect = 6e-26
Identities = 49/264 (18%), Positives = 91/264 (34%), Gaps = 50/264 (18%)
Query: 981 KFEESINYR-FKDKSYLLQAMTHASY--------FLNTLTDCYQRLEFLGDAILDYLITR 1031
+ I Y D++ A H S+ +RLEFLGD+ L L++
Sbjct: 87 DVDMFIKYPVVYDENLENLAFMHKSFPNMNAHLNDAQKTQLSNERLEFLGDSWLGALVSY 146
Query: 1032 HLYEDERAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAE 1091
+Y + + G L+ ++ ++VNN + +L F
Sbjct: 147 IVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTK---------------------- 184
Query: 1092 NDFTLNQEYYLMEGECDEAEDIE--VPKALGDLFESVAGAIYLDSGMS-LDTVWKVYYEI 1148
L ++ + K D E+ GA+ +D + + + E+
Sbjct: 185 ---------RLQGNIATPTRVVKDKMSKRYADCVEAYIGALVIDRFGTEFLDIKEWLEEL 235
Query: 1149 MKSEIERLSVSVPKSPIR-----ELLELEPENARFSKPE-KLADGRRV-RVTVEVFGKGS 1201
+ ++ + S V K P+ EL EL N K + RV V++
Sbjct: 236 SEKKLAKSSQMVIKEPLNKNAKNELAELLQINKLGHKLHYRKLTEMPPFRVEVKIGDILL 295
Query: 1202 YKGIGRNYCIAKCTAAKCALKHLK 1225
+ G + A+ AA L++ +
Sbjct: 296 DEAEGNSIREAEHRAAMKVLENDE 319
Score = 52.5 bits (126), Expect = 5e-07
Identities = 34/189 (17%), Positives = 72/189 (38%), Gaps = 28/189 (14%)
Query: 658 NHINSKAEFVKVIQDK-LTFYEGQLELIKNRIDVENTIKENQPVHIVRQSFDNASNPSKN 716
N E +K+I + L + L L ++ TI +++ + N +
Sbjct: 14 NACVKLKESIKLIYENPLVTDQNVLNLGTAENTIDYTILNTPTLNVAKTLLGNRYSLDLI 73
Query: 717 TAILTEILENINKLNTYGSVEKDVKTEPKSPGKSCEHGIIRNTS------TPSDFSFDFQ 770
+ ++ + ++ V+ +K + ++ + + SF
Sbjct: 74 D-----LFQSHDFKDSNTDVDMFIK-----------YPVVYDENLENLAFMHK--SFPNM 115
Query: 771 PDLENHTGPSPK---RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFK 827
N + RLE +GDS+L ++ +Y +P+ +EG LS ++ V+N NLF
Sbjct: 116 NAHLNDAQKTQLSNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFD 175
Query: 828 LGKQKVFGE 836
+ F +
Sbjct: 176 WSTKLNFTK 184
Score = 30.1 bits (68), Expect = 4.0
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 924 PDKSIADCVEALIGAYLIECGPRG 947
K ADCVEA IGA +I+
Sbjct: 201 MSKRYADCVEAYIGALVIDRFGTE 224
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A
{Vanderwaltozyma polyspora}
Length = 246
Score = 100 bits (251), Expect = 1e-23
Identities = 32/193 (16%), Positives = 65/193 (33%), Gaps = 43/193 (22%)
Query: 977 DGFDKFEESINY-RFKDKSYLLQAMTHASY--------FLNTLTDCYQRLEFLGDAILDY 1027
D + I Y D++ A H S+ +RLEFLGD+ L
Sbjct: 83 DSNTDVDMFIKYPVVYDENLENLAFMHKSFPNMNAHLNDAQKTQLSNERLEFLGDSWLGA 142
Query: 1028 LITRHLYEDERAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVK 1087
L++ +Y + + G L+ ++ ++VNN + +L F
Sbjct: 143 LVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTK------------------ 184
Query: 1088 MQAENDFTLNQEYYLMEGECDEAEDIE--VPKALGDLFESVAGAIYLDSGMS-LDTVWKV 1144
L ++ + K D ++ GA+ +D + + +
Sbjct: 185 -------------RLQGNIATPTRVVKDKMSKRYADCVQAYIGALVIDRFGTEFLDIKEW 231
Query: 1145 YYEIMKSEIERLS 1157
E+ + ++ + S
Sbjct: 232 LEELSEKKLAKSS 244
Score = 57.5 bits (139), Expect = 5e-09
Identities = 36/201 (17%), Positives = 77/201 (38%), Gaps = 28/201 (13%)
Query: 658 NHINSKAEFVKVIQDK-LTFYEGQLELIKNRIDVENTIKENQPVHIVRQSFDNASNPSKN 716
N E +K+I + L + L L ++ TI +++ + N +
Sbjct: 14 NACVKLKESIKLIYENPLVTDQNVLNLGTAENTIDYTILNTPTLNVAKTLLGN-----RY 68
Query: 717 TAILTEILENINKLNTYGSVEKDVKTEPKSPGKSCEHGIIRNTS------TPSDFSFDFQ 770
+ L ++ ++ + ++ V+ +K + ++ + + SF
Sbjct: 69 SLDLIDLFQSHDFKDSNTDVDMFIK-----------YPVVYDENLENLAFMHK--SFPNM 115
Query: 771 PDLENHTGPSPK---RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFK 827
N + RLE +GDS+L ++ +Y +P+ +EG LS ++ V+N NLF
Sbjct: 116 NAHLNDAQKTQLSNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFD 175
Query: 828 LGKQKVFGESMIATKFEPRDN 848
+ F + + P
Sbjct: 176 WSTKLNFTKRLQGNIATPTRV 196
Score = 29.4 bits (66), Expect = 7.3
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 924 PDKSIADCVEALIGAYLIECGPRGALLFMSWLGLKVIPPVTNPESK 969
K ADCV+A IGA +I+ L WL ++ S+
Sbjct: 201 MSKRYADCVQAYIGALVIDRFGTEFLDIKEWL-EELSEKKLAKSSQ 245
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase;
3.00A {Giardia intestinalis} PDB: 2ffl_A
Length = 756
Score = 102 bits (255), Expect = 3e-22
Identities = 32/193 (16%), Positives = 59/193 (30%), Gaps = 48/193 (24%)
Query: 981 KFEESINYRFKDKSYLLQAMTHASYFLNTLTDCYQRLEFLGDAILDYLITRHLYEDERAH 1040
+ ++H TD +QRLE LGDA+L +++T L
Sbjct: 309 DQGRGRGLAGWRTPFGPFGVSH--------TDVFQRLELLGDAVLGFIVTARLLCLFPDA 360
Query: 1041 SPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAENDFTLNQEY 1100
S GTL +L+ LV N L LG + + + +
Sbjct: 361 SVGTLVELKMELVRNEALNYLVQTLGLPQLAEFSNNLVAK-------------------- 400
Query: 1101 YLMEGECDEAEDIEVPKALGDLFESVAGAIYLDSGMSLDTVWKVYYEIMKSEIERLSVSV 1160
K D++E + G+I+ + + + + S +V
Sbjct: 401 ---------------SKTWADMYEEIVGSIFTGPNG-IYGCEEFLAKTLMSPEHSKTVGS 444
Query: 1161 ----PKSPIRELL 1169
+ + +
Sbjct: 445 ACPDAVTKASKRV 457
Score = 98.5 bits (245), Expect = 5e-21
Identities = 33/173 (19%), Positives = 47/173 (27%), Gaps = 43/173 (24%)
Query: 982 FEESINYRFKDKSYLLQAMTHASYFLNTLTDCYQRLEFLGDAILDYLITRHLYEDERAHS 1041
L A+T Y Q+LE LGDA L + HL+ +
Sbjct: 624 VPIPSGTIPFLIRLLQIALTPHVY---------QKLELLGDAFLKCSLALHLHALHPTLT 674
Query: 1042 PGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSPGLHEVIQRFVKMQAENDFTLNQEYY 1101
G LT +R + N + L R
Sbjct: 675 EGALTRMRQSAETNSVLGRLTKRFP---SVVSEVII------------------------ 707
Query: 1102 LMEGECDEAEDIEVPKALGDLFESVAGAIYLDSGMSLDTVWKVYYEIMKSEIE 1154
E D K GD FE++ AI L G + E + ++
Sbjct: 708 --ESHPKIQPD---SKVYGDTFEAILAAILLACGE--EAAGAFVREHVLPQVV 753
Score = 58.4 bits (141), Expect = 1e-08
Identities = 17/54 (31%), Positives = 27/54 (50%)
Query: 783 RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGE 836
RLE +GD+ L + +T L C +P+ G L L+ + V N L L + +
Sbjct: 336 RLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGLPQ 389
Score = 56.5 bits (136), Expect = 4e-08
Identities = 17/49 (34%), Positives = 31/49 (63%)
Query: 783 RLETIGDSFLKYAITIFLYCTYPNVHEGKLSHLRSKQVSNYNLFKLGKQ 831
+LE +GD+FLK ++ + L+ +P + EG L+ +R +N L +L K+
Sbjct: 649 KLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETNSVLGRLTKR 697
Score = 41.1 bits (96), Expect = 0.003
Identities = 25/120 (20%), Positives = 41/120 (34%), Gaps = 19/120 (15%)
Query: 319 FYVAEIMTNVHPRSMFPSRTNTYQTFEEYYSLKYGLQIQNLEQPLLDVDHTSCRLNFLTP 378
+ V I + S F R N T+ YY+ + + ++ + PL+ + P
Sbjct: 171 YVVLGIDSTQTSLSYFT-RANESITYMRYYATAHNIHLRAADLPLVAAVRLDDLKDHQIP 229
Query: 379 RYVNRKGINLATTSEETRREIRESLGKKQLLVPELCLIHPFPASLWRKSV--SLPSILYR 436
+ ++ L + L PELCL+ P L R LP I
Sbjct: 230 A-------------PGSWDDLAPKL---RFLPPELCLLLPDEFDLIRVQALQFLPEIAKH 273
>3o7v_X PIWI-like protein 1; PIWI, RNA silencing, PI-RNA, HIWI1, HILI, PAZ
domain, RNA BI protein; HET: OMU; 2.10A {Homo sapiens}
PDB: 2l5c_A 2l5d_A 3o3i_X 3o6e_X*
Length = 124
Score = 81.5 bits (201), Expect = 2e-18
Identities = 29/144 (20%), Positives = 54/144 (37%), Gaps = 31/144 (21%)
Query: 281 DVIQDIPEKERENFVFDESK--FRDAVVMPWYRNQFEPTYFYVAEIMTNVHPRSMFPSRT 338
D + + + E+ ++ VV+ Y N+ + V +I + +P+S F
Sbjct: 6 DFMFNFYHQTEEHKFQEQVSKELIGLVVLTKYNNKT----YRVDDIDWDQNPKSTFKKAD 61
Query: 339 NTYQTFEEYYSLKYGLQIQNLEQPLLDVDHTSCRLNFLTPRYVNRKGINLATTSEETRRE 398
+ +F EYY +Y +I +L+QP+L + RR
Sbjct: 62 GSEVSFLEYYRKQYNQEITDLKQPMLVS-------------------------QPKRRRG 96
Query: 399 IRESLGKKQLLVPELCLIHPFPAS 422
+L +L+PELC +
Sbjct: 97 PGGTLPGPAMLIPELCYLTGLTDK 120
>2xfm_A MIWI, PIWI-like protein 1; RNA-protein complex, differentiation,
RNA interference; HET: OMU; NMR {Mus musculus}
Length = 150
Score = 80.4 bits (198), Expect = 9e-18
Identities = 28/158 (17%), Positives = 60/158 (37%), Gaps = 31/158 (19%)
Query: 281 DVIQDIPEKERENFVFDESK--FRDAVVMPWYRNQFEPTYFYVAEIMTNVHPRSMFPSRT 338
D + ++ ++ E+ ++ +V+ Y N+ + V +I + +P+S F
Sbjct: 7 DFMFNLYQQTEEHKFQEQVSKELIGLIVLTKYNNKT----YRVDDIDWDQNPKSTFKKAD 62
Query: 339 NTYQTFEEYYSLKYGLQIQNLEQPLLDVDHTSCRLNFLTPRYVNRKGINLATTSEETRRE 398
+ +F EYY +Y +I +L+QP+L + + RR
Sbjct: 63 GSEVSFLEYYRKQYNQEITDLKQPVLV-------------------------SQPKRRRG 97
Query: 399 IRESLGKKQLLVPELCLIHPFPASLWRKSVSLPSILYR 436
+L +L+PELC + + + +
Sbjct: 98 PGGTLPGPAMLIPELCYLTGLTDKMRNDFNVMKDLAVH 135
>3qir_A PIWI-like protein 2; structural genomics consortium, SGC, PAZ
domain, RNAI, RNA B RNA binding protein; 2.45A {Homo
sapiens} PDB: 3o7x_A
Length = 148
Score = 77.8 bits (191), Expect = 7e-17
Identities = 31/144 (21%), Positives = 54/144 (37%), Gaps = 29/144 (20%)
Query: 281 DVIQDIPEKERENFVFD-ESKFRDAVVMPWYRNQFEPTYFYVAEIMTNVHPRSMFPSRTN 339
DV+ I ++ +E+F + +V+ Y N+ + + ++ N P+ F
Sbjct: 7 DVMHAIYQQNKEHFQDECTKLLVGNIVITRYNNRT----YRIDDVDWNKTPKDSFTMSDG 62
Query: 340 TYQTFEEYYSLKYGLQIQNLEQPLLDVDHTSCRLNFLTPRYVNRKGINLATTSEETRREI 399
TF EYYS YG+ ++ +QPL L E +
Sbjct: 63 KEITFLEYYSKNYGITVKEEDQPL------------------------LIHRPSERQDNH 98
Query: 400 RESLGKKQLLVPELCLIHPFPASL 423
L + LL+PEL + P +
Sbjct: 99 GMLLKGEILLLPELSFMTGIPEKM 122
>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 = 76.0 bits (186), Expect = 6e-14
Identities = 88/685 (12%), Positives = 196/685 (28%), Gaps = 225/685 (32%)
Query: 261 DSEQIVIDWKFMTLISEHHNDVIQDIPEKERENF---VFDESKFRDAVVMPWYRNQFEPT 317
D E +++ ++S + + + K+ ++ + + + ++ + T
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK---DAVSGT 64
Query: 318 YFYVAEIMTNVHPRSMFPSRTNTYQTF-EEYYSLKYG-----LQIQNLEQPLLDVDHTSC 371
+++ + Q F EE + Y ++ + + ++ +
Sbjct: 65 LRLFWTLLSK---------QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 372 RLNF------LTPRYVNRKGINLATTSEETRREIRESLGK----------------KQLL 409
R V+R + ++R++L + K +
Sbjct: 116 RDRLYNDNQVFAKYNVSR---------LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV 166
Query: 410 VPELCLIHPFPASL-----W---RKSVSLPSILYRLNALLLADEIRTAVASEIGLGKVIL 461
++CL + + W + S ++L L LL +I
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY----------QIDPNWTSR 216
Query: 462 DEKVEWPPFNFGWKMKKLKEKYGWDTKDAND--VIVDDTEVNDTKEDDSAVNEICTEIAK 519
+ +L+ +K + +++ + V + K + A N C K
Sbjct: 217 SDHSSNIKLRIHSIQAELRRL--LKSKPYENCLLVLLN--VQNAKAWN-AFNLSC----K 267
Query: 520 VEIVDKKETVCDSGNEQENEDEEKLDKIKSDENKTESQGVEPWVEIGTWSNEMAAGVECK 579
+ + + + V D + LD E + + + ++C+
Sbjct: 268 ILLTTRFKQVTDFLSAA-TTTHISLDHHSMTLTPDEVKSL------------LLKYLDCR 314
Query: 580 PYPMTPPMFSDDEDSNDDLSSVDFDVEDDFRENEKEDTLQIQFKGKYSAEAICEGEEESA 639
P DL RE + ++ +I A
Sbjct: 315 P---------------QDLP----------REVLTTNPRRL---------SII------A 334
Query: 640 LKIQDWIESNFFWEEIDVNHINSKAEFVKVIQDKLTFYEGQLELIKNRIDVENTIKENQP 699
I+D + + W+ H+N DKLT +I++ ++V
Sbjct: 335 ESIRDGLATWDNWK-----HVNC---------DKLT------TIIESSLNVLEP------ 368
Query: 700 VHIVRQSF-------DNASNPSKNTAIL-----TEILENI-NKLNTYGSVEKDVKTEPKS 746
R+ F +A P+ +++ + + NKL+ Y VEK K
Sbjct: 369 -AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK----- 422
Query: 747 PGKSCEHGIIRNTSTPSDFSFDFQPDLEN----HTGPSPKRLETIGDSFLKYAITIFLYC 802
+T + + + LEN H + + Y I
Sbjct: 423 ----------ESTISIPSIYLELKVKLENEYALH-----RSIVD------HYNIP----K 457
Query: 803 TYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGESMIATKFEPRDNWLPPGYFVPKYLET 862
T+ + L + Y +G + + R + ++LE
Sbjct: 458 TFDS------DDLIPPYLDQYFYSHIGHH------LKNIEHPERMTLFRMVFLDFRFLEQ 505
Query: 863 ALIEAGFPASLWNCLS--LPNLKEL 885
+ WN L L++L
Sbjct: 506 KIRHDSTA---WNASGSILNTLQQL 527
Score = 74.1 bits (181), Expect = 2e-13
Identities = 97/642 (15%), Positives = 183/642 (28%), Gaps = 196/642 (30%)
Query: 590 DDEDSNDDLSSVD--FDVEDDFREN----EKEDTLQIQFKGKYSAEAICEGEEESALKIQ 643
D E D ED F +N + +D + + I + S
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 644 DWI----ESN----FFWEEIDVNH---INSKAEFVKVIQDKLTFYEGQLELIKNRIDVEN 692
W + F E + +N+ ++ + Y Q + + N D +
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN--DNQV 125
Query: 693 TIKEN----QPVHIVRQSFDNASNPSKNTAILTEILENINKLNTYG-----------SVE 737
K N QP +RQ+ P+KN I G V
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELR-PAKNVLI-------------DGVLGSGKTWVALDVC 171
Query: 738 KDVKTEPKSPGKSCEHGI----IRNTSTPSD-------FSFDFQPDLE---NHTGPSPKR 783
K + K I ++N ++P + P+ +H+ R
Sbjct: 172 LSYKVQCKMDF-----KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226
Query: 784 LETIGDSFLKYAITIFLYCTYPN---VHEGKLSHLRSKQVSNYNLFKLG--------KQK 832
+ +I + + Y N V L ++++ + N F L ++
Sbjct: 227 IHSIQAELRR----LLKSKPYENCLLV----LLNVQNAKAWNA--FNLSCKILLTTRFKQ 276
Query: 833 VFGESMIATKFEPRDNWLPPGYFVP--------KYLETA-------------LIEAGFPA 871
V AT + P KYL+ +
Sbjct: 277 VTDFLSAATTTHISLDHHSMT-LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 872 SL------WNCLSLPNLKELSPEKVLEIIKQKCVD-LD------CTVDMNVQSVVPYNLV 918
S+ W+ N K ++ +K+ II+ ++ L+ + SV P +
Sbjct: 336 SIRDGLATWD-----NWKHVNCDKLTTIIE-SSLNVLEPAEYRKMFDRL---SVFPPSA- 385
Query: 919 TQHSIPDKSIA------------DCVEALIGAYLIECGPRGALLFMSWLGLKVIPPVTNP 966
IP ++ V L L+E P+ + + + + L++ + N
Sbjct: 386 ---HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 967 ESKHLSDV----LLDGFDKFEESI----NYRFKDKSYLLQAMTHASYFLNTLTDCYQRLE 1018
+ H S V + FD + Y + + L+ + H +
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM-TLFRMVFLDFR 501
Query: 1019 FLGDAILDYLITRH--LYEDERAHSPGTLTDLR-------------SALVNNIIFASLAV 1063
FL I RH + TL L+ LVN I+
Sbjct: 502 FLEQKI------RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL------ 549
Query: 1064 RLGFHHFFKHLSPGLHE-----VIQRFVKMQAENDFTLNQEY 1100
F + L +++ + + AE++ + +
Sbjct: 550 -----DFLPKIEENLICSKYTDLLR--IALMAEDEAIFEEAH 584
Score = 55.6 bits (133), Expect = 1e-07
Identities = 76/513 (14%), Positives = 162/513 (31%), Gaps = 158/513 (30%)
Query: 1 MDNAIFIVN-RYCARLPSDIFTRLAPIITISEIKEDDSIMFTCSIRLPINSP---LKRSV 56
MD IF +N + C P + L ++ + + +I+L I+S L+R +
Sbjct: 180 MDFKIFWLNLKNCNS-PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 57 TGHKMPTKLL-------AWRIAAME-ACRVLYELKELDNDLMPVTKEFINLYENTEPVVP 108
LL A A +C++L +T F + +
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKIL------------LTTRFKQVTDFLSAATT 286
Query: 109 KTPEIETYPDSTKRRQFYHKRMASCFTNCRPSVNTPCYLYAVKMKLTCPIPDEQNKRGRK 168
++ + + + S L C D
Sbjct: 287 THISLDHHSMT-----LTPDEVKSLLLKY----------------LDCRPQDL------- 318
Query: 169 IHPPE---NSPQGLAIL---------TTKYIPKVCSFPIFTRCGEVEVSIELIDKNVVLS 216
P E +P+ L+I+ T V + T +E S+ +++
Sbjct: 319 --PREVLTTNPRRLSIIAESIRDGLATWDNWKHV-NCDKLTTI--IESSLNVLEPAEYRK 373
Query: 217 E-ENLSNTLIFMD--YLFTKVL-----------------KLKKYLMLF-DPNCSENSYFI 255
+ LS +F ++ T +L KL KY ++ P E++ I
Sbjct: 374 MFDRLS---VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK--ESTISI 428
Query: 256 VPTVSDSEQIVIDWKFMTLISEHHNDVIQDIPEKERENFVFDESKFRDAVVMPWYRNQFE 315
P++ ++ ++ ++ H ++ +++ ++ D ++ P+ F
Sbjct: 429 -PSIYLELKVKLENEY-----ALHRSIV--------DHYNIPKTFDSDDLIPPYLDQYF- 473
Query: 316 PTYFYVAEIMTNVHPRSMFPSRTNTYQTFEEYYSLKYGLQIQNLEQPLLDVDHTSCRLNF 375
Y ++ H +++ F + L+F
Sbjct: 474 --YSHIGH-----HLKNI--EHPERMTLFRMVF------------------------LDF 500
Query: 376 LTPRYVNRKGINLATTSEETRREIRESLGKKQLLVPELCLIHPFPASLWRKSVSLPSILY 435
R++ +K I +T+ I +L + + P +C P R ++ L
Sbjct: 501 ---RFLEQK-IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE---RLVNAILDFLP 553
Query: 436 RLNALLL----ADEIRTAVASEIGLGKVILDEK 464
++ L+ D +R A+ +E + I +E
Sbjct: 554 KIEENLICSKYTDLLRIALMAE---DEAIFEEA 583
Score = 49.1 bits (116), Expect = 1e-05
Identities = 81/569 (14%), Positives = 176/569 (30%), Gaps = 165/569 (28%)
Query: 195 IFTRCGEVEVSIELIDKNVVLSEENLSNTL-IFMDYLFT---KVLKLKKYLMLFDPNCSE 250
+ + + ++ + + + L N +F Y + LKL++ L+ P
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA--- 150
Query: 251 NSYFIVPTVSDSEQIVIDWKFM------TLISEHHNDVIQDIPEKERENF-VF-----DE 298
+ ++ID + + + V + + +F +F +
Sbjct: 151 ------------KNVLIDG--VLGSGKTWVALD----VCLSYKVQCKMDFKIFWLNLKNC 192
Query: 299 SKFRDAVVMPW-YRNQFEPTYFYVAEIMTNVHPRSMFPSRTNTYQTFEEYYSLKYGLQIQ 357
+ + M Q +P + ++ +N+ R + L+ L+ +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNI------KLRIH-----SIQAELRRLLKSK 241
Query: 358 NLEQPLLDVDH-----------TSCR-------------LNFLTPRYVNRKGINLATTSE 393
E LL + + SC+ L+ T +++ ++ T +
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 394 ETRREIRESLG-KKQLLVPELCLIHPFPASL--------------WRKSVS--LPSILYR 436
E + + + L + Q L E+ +P S+ W+ L +I+
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 437 -LNALLLADEIRTAVASEIGLGKVILDEKVEWPPFNFGWKMKKLKEKYGWDTKDANDVIV 495
LN L E R L + P L W +DV+V
Sbjct: 362 SLNV-LEPAEYRKMFDR---L--SVFPPSAHIPT--------ILLSLI-WFDVIKSDVMV 406
Query: 496 DDTEVN-------DTKEDDSAVNEICTEIAKVEIVDKKE---TVCDSGNEQENEDEEKLD 545
+++ KE ++ I E+ KV++ ++ ++ D N + D + L
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLEL-KVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 546 KIKSDENKTESQGVEPWVEIGTWSNEMAAGVECKPYPMTPPMFSDDEDSNDDLSSVDFDV 605
D + + + + + + + V D
Sbjct: 466 PPYLD---------------QYFYSHIG-------HHLKN---IEHPERMTLFRMVFLD- 499
Query: 606 EDDFREN-------------EKEDTLQIQFKGKYSAEAICEGEEESALKIQDWIESNFFW 652
F E +TLQ Q K Y IC+ + + + ++ F
Sbjct: 500 -FRFLEQKIRHDSTAWNASGSILNTLQ-QLK-FYK-PYICDNDPKYERLVNAILD---FL 552
Query: 653 EEIDVNHINSKAEFVKVIQDKLTFYEGQL 681
+I+ N I SK + +++ L + +
Sbjct: 553 PKIEENLICSK--YTDLLRIALMAEDEAI 579
>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 = 3e-08
Identities = 53/279 (18%), Positives = 93/279 (33%), Gaps = 79/279 (28%)
Query: 927 SIADCV-EALIGAYLIECGPRGALLFMSWLGLKVIPPVTNPESKHLSDVLLDGFDKFEES 985
SI D V + + G +G + ++ + T + K ++ + + E S
Sbjct: 1660 SILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF---ETIVDGKLKTEKIFKEIN--EHS 1714
Query: 986 INYRFKDKSYLL------Q-AMTHASYFLNTLTDCYQRLEFLGDAILDYLITRHLYEDER 1038
+Y F+ + LL Q A+T A + L ++ L +
Sbjct: 1715 TSYTFRSEKGLLSATQFTQPALTLMEK-----------------AAFEDLKSKGLIPADA 1757
Query: 1039 A---HSPGTLTDLRSALV--NNII-FASLAVRLGFHHFFKHLSPGLHEVIQR--FVKMQA 1090
HS G +AL +++ S V + V R +++
Sbjct: 1758 TFAGHSLGEY----AALASLADVMSIES-LVEV---------------VFYRGMTMQVAV 1797
Query: 1091 ENDFTLNQEYYLM---------EGECDEA-EDI--EVPKALGDLFESV----AGAIYLDS 1134
D L + Y M EA + + V K G L E V Y+ +
Sbjct: 1798 PRD-ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA 1856
Query: 1135 G--MSLDTVWKV--YYEIMKSEIERLSVSVPKSPIRELL 1169
G +LDTV V + ++ K +I L S+ + L
Sbjct: 1857 GDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 56.6 bits (136), Expect = 6e-08
Identities = 97/587 (16%), Positives = 165/587 (28%), Gaps = 216/587 (36%)
Query: 586 PMFSDDEDSNDDLSSVDFDVEDDFRENEKEDTLQIQFKGKYSA---EAICEGEEESALKI 642
P ++ ++D+ ++ E L +F G Y + E G+ + L +
Sbjct: 42 PEPTEGFAADDEPTTP---AE-----------LVGKFLG-YVSSLVEPSKVGQFDQVLNL 86
Query: 643 Q-DWIESNFFWEEIDVNHINSKAEFVKVIQDKLTFYEGQLELIKNRIDVENTIKENQPVH 701
E+ + N I++ A K++Q+ T ELIKN I +P
Sbjct: 87 CLTEFENCYLEG----NDIHALA--AKLLQENDTTLVKTKELIKNYITARIMA--KRPFD 138
Query: 702 IVRQS--FDNASNPSKNT-AI----------LTEILENINKL-NTYGSVEKDVKTEPKSP 747
S F + AI E+ + L TY + D+ K
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD----LYQTYHVLVGDLI---KFS 191
Query: 748 GKSCEHGIIRNTSTPSDFS--FDFQPDLENHTGPSPKRLETIGDSFLKYA-IT---IFLY 801
++ I F+ + LEN +P +L I+ I +
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLEN-PSNTP------DKDYLLSIPISCPLIGVI 244
Query: 802 CTYPNVHEGKLSHLRSKQVSNYNLFKLGKQKVFGESMIATKFEPRDNWLPPGYFVPKYLE 861
Q+++Y + K+ G PG YL+
Sbjct: 245 -----------------QLAHYVVT----AKLLG--------------FTPGELRS-YLK 268
Query: 862 TA------LIEAGFPASLWNCLSLPNLKELSPEKVLEI---IKQKCVDLDCTVDMNVQSV 912
A L+ A A S + K + + I +C
Sbjct: 269 GATGHSQGLVTAVAIAE---TDSWESFFVSV-RKAITVLFFIGVRC-----------YEA 313
Query: 913 VPYNLVTQHSIPDKSIADCVEALIGAYLIECGPRGALLFMSWLGLKVIPPV--------T 964
P S+P + D +E G P M L + + T
Sbjct: 314 YP-----NTSLPPSILEDSLENNEGV------PS----PM--LSISNLTQEQVQDYVNKT 356
Query: 965 N---PESKHLSDVLLDGFDKF-----EESINYRF-------KDKSYLLQAMTHASYFLNT 1009
N P K + L++G +S+ Y K S L Q+ S
Sbjct: 357 NSHLPAGKQVEISLVNGAKNLVVSGPPQSL-YGLNLTLRKAKAPSGLDQSRIPFS----- 410
Query: 1010 LTDCYQR-----LEFLGDAIL-----DYL------ITRHLYEDERAHSPGTL-------- 1045
+R FL + L I + L ++ + + +
Sbjct: 411 -----ERKLKFSNRFL--PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTF 463
Query: 1046 --TDLRS-------ALVNNIIFASL----AVRLGFHHF--FKHLSPG 1077
+DLR +V+ II + + H F PG
Sbjct: 464 DGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF---GPG 507
Score = 47.0 bits (111), Expect = 5e-05
Identities = 91/568 (16%), Positives = 158/568 (27%), Gaps = 217/568 (38%)
Query: 62 PTKLLAWRIAAMEACRVLYELKELDNDLMPVTKEFINLYENTEPVVPKTPE--------I 113
PT L E + + L T+ F + EP P E +
Sbjct: 23 PTASFF-------IASQLQE--QFNKILPEPTEGFA---ADDEPTTP--AELVGKFLGYV 68
Query: 114 ETYPDSTKRRQFYH--KRMASCFTNCRPSVNTPCYL-----YAVKMKLTCPIPDEQNKR- 165
+ + +K QF + F NC YL +A+ KL K
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENC--------YLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 166 -------------GRKIHPPENSP------------------QG--------LAILTTKY 186
R NS QG L L Y
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 187 IPKVCSFPIFTRCGEVEVSIELIDKNVVLSEENLSNTLIFMDYLFTKVLKLKKYLMLFDP 246
V ++ S E + L T + + +FT+ L + ++L +P
Sbjct: 181 HVLVGDL--------IKFSAETL--------SELIRTTLDAEKVFTQGLNILEWLE--NP 222
Query: 247 NCS-ENSYFIVPTVSDSEQIVIDWKFMTLISEHHNDVIQDI----PEKERENF--VFDES 299
+ + + Y + +S + +I H V + P + R S
Sbjct: 223 SNTPDKDYLLSIPIS--------CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 300 KFRDAVVMP--------WYRNQFEPTYFYVAEIM-------TNVHPRSMFPSRTNTYQTF 344
+ +V W F + ++ +P + P
Sbjct: 275 Q---GLVTAVAIAETDSW--ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE---- 325
Query: 345 EEYYSLKYG-------LQIQNLEQPLLD--VDHTSCRL---------------NF-LT-- 377
SL+ L I NL Q + V+ T+ L N ++
Sbjct: 326 ---DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382
Query: 378 PRYVNRKGINLATTSEETRREIRESLGKKQLLVP----ELCLIHPF-PASLWRKSVSLP- 431
P+ + G+NL R+ + G Q +P +L + F P V+ P
Sbjct: 383 PQSL--YGLNLTL------RKAKAPSGLDQSRIPFSERKLKFSNRFLP-------VASPF 427
Query: 432 --SILYRLNALLLADEIRTAVASEIGLGKVILDEKVEWPPFNFGWKMKKLKEK-YGWDTK 488
+L + L+ D ++ V + K ++ Y DT
Sbjct: 428 HSHLLVPASDLINKD---------------LVKNNVSFNA-------KDIQIPVY--DTF 463
Query: 489 DANDVIVDDTEVNDTKEDDSAVNEICTE 516
D +D+ V ++ + V+ I
Sbjct: 464 DGSDLRVLSGSIS-----ERIVDCIIRL 486
Score = 42.7 bits (100), Expect = 9e-04
Identities = 71/417 (17%), Positives = 111/417 (26%), Gaps = 170/417 (40%)
Query: 907 MNVQSVVPYNLV---TQHSIP----------------DKSIADCVEALIGAYLIECGPRG 947
M+ S P L +H + +K + + E E P
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD--E--PTT 56
Query: 948 AL-LFMSWLGLKVIPPVTNPESKHLSDVLLDGFDKFEESI-------------------- 986
L +LG V V + VL +FE
Sbjct: 57 PAELVGKFLGY-VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 987 ---------NY--------RFKDK---SYLLQAMT--HAS-------------YF--LNT 1009
NY R DK S L +A+ +A YF L
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 1010 LTDCYQRLEFLGDAI------LDYLITRHLYEDERAHSPGT-----LTD---------LR 1049
L Y +GD I L LI R + E+ + G L + L
Sbjct: 176 LYQTYH--VLVGDLIKFSAETLSELI-RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 1050 SALVN-NII-------FASLAVRLGFHH--FFKHLSPGLHEVIQRFVKMQA------END 1093
S ++ +I + A LGF +L G Q V A
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK-GATGHSQGLVTAVAIAETDSWES 291
Query: 1094 FTLNQEYYLMEGECDEAEDIEVPKALGDLF----ES--VAGAIYLDSGMSLDTVWKVYYE 1147
F ++ V KA+ LF L + D++ E
Sbjct: 292 FFVS-----------------VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL-----E 329
Query: 1148 I-------MKSEIERLSVS-VPKSPIRELLELEPENARFSKPEK----LADGRRVRV 1192
M LS+S + + +++ + N+ ++ L +G + V
Sbjct: 330 NNEGVPSPM------LSISNLTQEQVQDYVNK--TNSHLPAGKQVEISLVNGAKNLV 378
Score = 39.3 bits (91), Expect = 0.010
Identities = 50/307 (16%), Positives = 96/307 (31%), Gaps = 118/307 (38%)
Query: 296 FDESK-FRDAVVMPWYR--NQFEPTY-FYVAEIMTNVHPRSM---FPS------RTNTYQ 342
+ SK +D W R N F+ TY F + +I+ N +P ++ F R N Y
Sbjct: 1636 YKTSKAAQDV----WNRADNHFKDTYGFSILDIVIN-NPVNLTIHFGGEKGKRIREN-YS 1689
Query: 343 --TFEEYYSLKYGLQIQNLEQPLLDVDHTSCRLNFLTPRYVNRKGIN--------LATTS 392
FE K E+ +++ S F + + + ++ L
Sbjct: 1690 AMIFETIVDGK-----LKTEKIFKEINEHSTSYTFRSEKGL----LSATQFTQPALTLME 1740
Query: 393 EETRREIRE-------------SLGKKQLLVPE---LCLIHPFPASLWRKSVSLPSILYR 436
+ +++ SLG E L S++
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLG-------EYAALA------------SLA------- 1774
Query: 437 LNALLLADEIRTAVASEIGLGKVILDEKVEWPPFNFGWKMKKLKEKYGWDTKDANDVIVD 496
+ + + + V G + +V P G + YG + ++
Sbjct: 1775 -DVMSIESLVEV-VFYR---GMTM---QVAVPRDELG------RSNYG-------MIAIN 1813
Query: 497 DTEVNDTKEDDSAVNEICTEIAK-----VEIV----DKKETVCDSGNEQ------ENEDE 541
V + + A+ + + K VEIV + ++ V +G+ + +
Sbjct: 1814 PGRVAASFSQE-ALQYVVERVGKRTGWLVEIVNYNVENQQYVA-AGDLRALDTVTNVLNF 1871
Query: 542 EKLDKIK 548
KL KI
Sbjct: 1872 IKLQKID 1878
Score = 30.8 bits (69), Expect = 3.6
Identities = 34/252 (13%), Positives = 69/252 (27%), Gaps = 109/252 (43%)
Query: 7 IVNRYCARLPSDIFTRLAPIITISEIKEDDSIMFTCSIRLPINSPLKRSVTGHKMPTKL- 65
VN+ + LP + I L +N V+G P L
Sbjct: 352 YVNKTNSHLP-----------------AGKQV----EISL-VNGAKNLVVSGP--PQSLY 387
Query: 66 -LAWRIAAMEA------CRVLYELKELDNDLMPVTKEFINLYENTEPV-VPKTPEIETYP 117
L + +A R+ + ++L + F L PV P
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKL-----KFSNRF--L-----PVASP--------- 426
Query: 118 DSTKRRQFYHKRMASCFTNCRPSVNTPCYLY-AVKMKLTCPIPDEQNKRGRKIHPPENSP 176
+H + L A + I + K + +
Sbjct: 427 --------FH---------------SH-LLVPASDL-----INKDLVKNNVSFNAKD--- 454
Query: 177 QGLAILTTKYIPKVCSFPIF-TRCGEVEVSIELIDKNVVLSEENLSNTLIFMDYLFTKVL 235
+ I P++ T G + ++ ++ E + + +I + +
Sbjct: 455 --IQI------------PVYDTFDGSD---LRVLSGSIS---ERIVDCIIRLPVKWETTT 494
Query: 236 KLKK-YLMLFDP 246
+ K +++ F P
Sbjct: 495 QFKATHILDFGP 506
>4f3t_A Protein argonaute-2; hydrolase/gene regulation, RNAI, slicer,
hydrolase-RNA; 2.25A {Homo sapiens} PDB: 4ei1_A 4ei3_A*
1r4k_A 1si2_A 1si3_A
Length = 861
Score = 41.7 bits (97), Expect = 0.002
Identities = 41/275 (14%), Positives = 84/275 (30%), Gaps = 24/275 (8%)
Query: 112 EIETYPDSTKRRQFYHKRMASCFTNCRPSVNTPCYLYAVKMKLTCPIPDEQNKRGRKIHP 171
+I+ + + + M F P + + P+P ++K ++
Sbjct: 62 DIKPEKCPRRVNREIVEHMVQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVTL 121
Query: 172 PENSPQGLAILTTKYIPKVCSFPI--FTRCGEVEVSIELID-KNVVLSEENLSNTLIFMD 228
P + ++ K++ V + V E I +VV+
Sbjct: 122 PGEGKDRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGR 181
Query: 229 YLFTKVLKLKKYL-----MLFDPNCS----ENSYFIVPTVSDS----EQIVIDWKFMTLI 275
FT L + F + S + VS + Q VI++ L
Sbjct: 182 SFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLD 241
Query: 276 SEHHNDVIQDIPEKERENFVFDESKFRDAVVMPWYRNQFEPTYFYVAEIMTNVHPRSMFP 335
+ + + + + +R F + + V + Q + Y V + FP
Sbjct: 242 FKSIEEQQKPLTDSQRVKF---TKEIKGLKVEITHCGQMKRKYR-VCNVTRRPASHQTFP 297
Query: 336 ----SRTNTYQTFEEYYSLKYGLQIQNLEQPLLDV 366
S T +Y+ ++ L ++ P L V
Sbjct: 298 LQQESGQTVECTVAQYFKDRHKLVLRYPHLPCLQV 332
>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 = 36.5 bits (83), Expect = 0.020
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 19/47 (40%)
Query: 1150 KSEIERLSVSVPKSPIRELLEL-EPENARFSKPEKLADGRRVRVTVE 1195
K +++L S L+L ++A P LA ++ T+E
Sbjct: 19 KQALKKLQAS---------LKLYADDSA----P-ALA----IKATME 47
Score = 33.8 bits (76), Expect = 0.16
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 11/36 (30%)
Query: 149 AVKMKLTCPIPDEQNKRGRKIHPPENSPQGLAILTT 184
A+K KL + K++ +++P LAI T
Sbjct: 21 ALK-KLQASL---------KLYADDSAP-ALAIKAT 45
Score = 29.5 bits (65), Expect = 3.9
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 9/35 (25%)
Query: 81 ELKELDNDLMPVTKEFINLYE-NTEPVVPKTPEIE 114
LK+L L K LY ++ P + +E
Sbjct: 21 ALKKLQASL----K----LYADDSAPALAIKATME 47
>1uil_A Double-stranded RNA-binding motif; structural genomics, DSRM, riken
structural genomics/proteomics initiative, RSGI RNA
binding protein; NMR {Mus musculus} SCOP: d.50.1.1 PDB:
2rs7_A
Length = 113
Score = 35.1 bits (80), Expect = 0.031
Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 6/86 (6%)
Query: 1 MDNAIFIVNRYCARLPSDIFTRLAPIITISEIKEDDSIMFTCSIRLPINSPLKRSVTGHK 60
++NA +N+Y + ++ +++ D + F + + I +R
Sbjct: 25 LENAKARLNQYFQK------EKIQGEYKYTQVGPDHNRSFIAEMTIYIKQLGRRIFAREH 78
Query: 61 MPTKLLAWRIAAMEACRVLYELKELD 86
K LA + A+ R LY L ++
Sbjct: 79 GSNKKLAAQSCALSLVRQLYHLGVIE 104
>1u61_A Hypothetical protein; structural genomics, PSI, protein STRU
initiative, midwest center for structural genomics, MCSG,
U function; 2.15A {Bacillus cereus} SCOP: a.149.1.1
Length = 138
Score = 34.5 bits (79), Expect = 0.060
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 1017 LEFLGDAILDYLITRHLYEDERAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFF 1071
L ++GDA+ + I HL + + P L L ++ V+ A + L F
Sbjct: 15 LAYMGDAVYEQYIRYHLLQ-KGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFL 68
>3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, nucleic acid binding
Pro RNA complex; 2.60A {Thermus thermophilus} PDB:
3dlb_A* 3dlh_A* 3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A
3hjf_A
Length = 685
Score = 35.0 bits (80), Expect = 0.19
Identities = 13/96 (13%), Positives = 27/96 (28%), Gaps = 8/96 (8%)
Query: 305 VVMPWYRNQFEPTYFYVAEIMTNVHPRSMFPSRTNTYQTFEEYYSLKYGLQIQNLEQPLL 364
V Y + T+ + + P+ + + +Y++ K LQ + +
Sbjct: 192 RVRNAYDRR---TWELLR--LGEEDPKELP---LPGGLSLLDYHASKGRLQGREGGRVAW 243
Query: 365 DVDHTSCRLNFLTPRYVNRKGINLATTSEETRREIR 400
D R + + L EE
Sbjct: 244 VADPKDPRKPIPHLTGLLVPVLTLEDLHEEEGSLAL 279
>2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l2k_B
Length = 71
Score = 31.5 bits (72), Expect = 0.21
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 1161 PKSPIRELLELEP----ENARFSKPEKLADGRRVRVTVEVFGKGSYKGIGRNYCIAKCTA 1216
K+P+ L EL P + S + ++V V G+ ++G GRN +AK A
Sbjct: 3 GKNPVMILNELRPGLKYDFLSESGESH---AKSFVMSVVVDGQ-FFEGSGRNKKLAKARA 58
Query: 1217 AKCALKHLK 1225
A+ AL +
Sbjct: 59 AQSALATVF 67
>1uhz_A Staufen (RNA binding protein) homolog 2; DSRM, staufen homolog 2,
structural genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: d.50.1.1
Length = 89
Score = 30.8 bits (70), Expect = 0.47
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 1193 TVEVF-GKGSYKGIGRNYCIAKCTAAKCALKHLKSAKPADVK 1233
++V G G G N IAK AA+ L L ++
Sbjct: 41 VMQVKVGNEVATGTGPNKKIAKKNAAEAMLLQLGYKASTSLQ 82
>3p1x_A Interleukin enhancer-binding factor 3; structural genomics,
PSI-biology, protein structure initiati northeast
structural genomics consortium, NESG; 1.90A {Homo
sapiens}
Length = 75
Score = 30.7 bits (70), Expect = 0.48
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 2/69 (2%)
Query: 1162 KSPIRELLELEPENARFSKPEKLADGRRV-RVTVEVFGKGSYKGIGRNYCIAKCTAAKCA 1220
K+P+ EL E E + + VEV G+ ++G G N +AK AA A
Sbjct: 7 KNPVMELNEKRRGLKYELISETGGSHDKRFVMEVEVDGQ-KFQGAGSNKKVAKAYAALAA 65
Query: 1221 LKHLKSAKP 1229
L+ L P
Sbjct: 66 LEKLFPDTP 74
>2l33_A Interleukin enhancer-binding factor 3; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative, DRBM; NMR {Homo sapiens}
Length = 91
Score = 30.9 bits (70), Expect = 0.50
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 2/70 (2%)
Query: 1161 PKSPIRELLELEPENARFSKPEKLADGRRV-RVTVEVFGKGSYKGIGRNYCIAKCTAAKC 1219
K+P+ EL E E + + VEV G+ ++G G N +AK AA
Sbjct: 16 GKNPVMELNEKRRGLKYELISETGGSHDKRFVMEVEVDGQ-KFQGAGSNKKVAKAYAALA 74
Query: 1220 ALKHLKSAKP 1229
AL+ L P
Sbjct: 75 ALEKLFPDTP 84
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.4 bits (73), Expect = 0.51
Identities = 12/62 (19%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 610 RENEKEDTLQIQFKGKYSAEAICEGEEESALKIQDWIESNFFWEEIDVNHINSKA---EF 666
RE +++ ++Q S E E++ +++W + E+++ N IN++ F
Sbjct: 91 REEQRK---RLQELDAASKVMEQEWREKAKKDLEEWNQR--QSEQVEKNKINNRIADKAF 145
Query: 667 VK 668
+
Sbjct: 146 YQ 147
>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein, gene
regulation; 3.00A {Arabidopsis thaliana} PDB: 2l2m_A
Length = 76
Score = 30.3 bits (69), Expect = 0.52
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 1191 RVTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKS 1226
TVE+ G R A+ +A + AL ++S
Sbjct: 39 TCTVEIGGIKYTGAATRTKKDAEISAGRTALLAIQS 74
>1x49_A Interferon-induced, double-stranded RNA- activated protein kinase;
structure genomics, DSRM domain, structural genomics,
NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1
Length = 97
Score = 30.8 bits (70), Expect = 0.59
Identities = 13/44 (29%), Positives = 19/44 (43%)
Query: 1188 RRVRVTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKSAKPAD 1231
RR V + K + GR+ A+ AAK A+ L + D
Sbjct: 45 RRFTFQVLIDEKEFPEAKGRSKQEARNAAAKLAVDILDNENKVD 88
>2xm5_A CLOQ; transferase, PT-barrel, antibiotic biosynthesis; 1.85A
{Streptomyces roseochromogenes subsp} PDB: 2xlq_A* 2xly_A
2xm7_A*
Length = 327
Score = 32.5 bits (73), Expect = 0.91
Identities = 17/61 (27%), Positives = 22/61 (36%), Gaps = 1/61 (1%)
Query: 1151 SEIERLSVSVPKSPIRELLELEPENARFSKPEKLADGRRVRVTVEVFG-KGSYKGIGRNY 1209
+IER+ K P L + ARF + D V FG G Y R+Y
Sbjct: 228 GDIERVCFYALKVPKNALPRIPTRIARFLEVAPSHDVEECNVIGWSFGRSGDYVKAERSY 287
Query: 1210 C 1210
Sbjct: 288 T 288
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex;
3.19A {Vanderwaltozyma polyspora}
Length = 1046
Score = 32.7 bits (73), Expect = 0.92
Identities = 6/41 (14%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 327 NVHPRSMF-PSRTNTYQTFEEYYSLKYGLQIQNLEQPLLDV 366
++ S P+ +Y+ KY + ++ + L+++
Sbjct: 406 SLKKNSAPKPNEKPININTIDYFKRKYDITLKYPDMKLVNL 446
>2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.50.1.1
Length = 97
Score = 30.2 bits (68), Expect = 0.99
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 1192 VTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKSAKPADVK 1233
++V+V G +Y+ G + AK A L+ + D
Sbjct: 50 MSVDVDGT-TYEASGPSKKTAKLHVAVKVLQAMGYPTGFDAD 90
>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing,
hydrolase; NMR {Drosophila melanogaster}
Length = 114
Score = 30.7 bits (69), Expect = 1.00
Identities = 21/85 (24%), Positives = 35/85 (41%), Gaps = 2/85 (2%)
Query: 1150 KSEIERLSVSVPKSPIRELLELEPENA-RFSKPEKLADGRRVRVTVEVFGKGSYKGIGRN 1208
K ++ + + PK+ + L EL + ++VEV G+ Y G GR+
Sbjct: 25 KKKMCKERIPQPKNTVAMLNELRHGLIYKLESQTGPVHAPLFTISVEVDGQ-KYLGQGRS 83
Query: 1209 YCIAKCTAAKCALKHLKSAKPADVK 1233
+A+ AA AL+ K V
Sbjct: 84 KKVARIEAAATALRSFIQFKDGAVL 108
>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure,
transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1
Length = 179
Score = 31.0 bits (70), Expect = 1.4
Identities = 10/41 (24%), Positives = 14/41 (34%)
Query: 1192 VTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKSAKPADV 1232
++ K G G AK AAK A + S +
Sbjct: 138 YKCKMGQKEYSIGTGSTKQEAKQLAAKLAYLQILSEETGSG 178
Score = 31.0 bits (70), Expect = 1.4
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 1188 RRVRVTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKSAKPAD 1231
RR V + G+ +G GR+ AK AAK A++ L K A
Sbjct: 44 RRFTFQVIIDGREFPEGEGRSKKEAKNAAAKLAVEILNKEKKAV 87
>2dix_A Interferon-inducible double stranded RNA- dependent protein kinase
activator A; structure genomics, DSRM domain,
hypothetical protein PRKRA; NMR {Homo sapiens} SCOP:
d.50.1.1
Length = 84
Score = 29.6 bits (67), Expect = 1.4
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 1189 RVRVTVEVFGKGSYKGIGRNYCIAKCTAAKCALKHLKSAKPA 1230
RVTV G + G G + +AK AA+ A+ LK+
Sbjct: 42 TFRVTV---GDITCTGEGTSKKLAKHRAAEAAINILKANASG 80
>1vj7_A Bifunctional RELA/SPOT; HD domain, alpha beta 2-layer sandwich, helix
bundle, mangan PPG2':3'P, (P)PPGPP, PPGPP; HET: GDP GPX;
2.10A {Streptococcus dysgalactiae subsp} SCOP: a.211.1.1
d.218.1.8
Length = 393
Score = 31.8 bits (73), Expect = 1.5
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 8/44 (18%)
Query: 1057 IFASLAVRLGFHHF--------FKHLSPGLHEVIQRFVKMQAEN 1092
I+A LA RLG F++L+ I + +
Sbjct: 170 IYAPLAHRLGISRIKWELEDLAFRYLNETEFYKISHMMNEKRRE 213
>1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA complex,
protein-RNA interactions, RNA-bining protein; 1.90A
{Xenopus laevis} SCOP: d.50.1.1
Length = 69
Score = 28.7 bits (65), Expect = 1.9
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 1/35 (2%)
Query: 1193 TVEVF-GKGSYKGIGRNYCIAKCTAAKCALKHLKS 1226
T+ G G + +AK AA+ L K+
Sbjct: 35 TITCRVETFVETGSGTSKQVAKRVAAEKLLTKFKT 69
>1itw_A Isocitrate dehydrogenase; greece KEY motif, oxidoreductase; HET:
ICT; 1.95A {Azotobacter vinelandii} SCOP: c.77.1.2 PDB:
1j1w_A*
Length = 741
Score = 31.6 bits (71), Expect = 2.3
Identities = 24/97 (24%), Positives = 34/97 (35%), Gaps = 11/97 (11%)
Query: 535 EQENEDEEKLDKIKSDENKTESQGVEPWVEIGTWSNEMAAGVECKPYPMTPPMFSDDEDS 594
E+ D EK K + D+ K + V P + G V K Y P S
Sbjct: 112 EEPKTDTEKDVKARYDKIKGSA--VNPVLREGNSDRRAPLSV--KNYARKHP-HKMGAWS 166
Query: 595 NDDLSSVDFDVEDDFRENEK------EDTLQIQFKGK 625
D S V DF +EK +++I+ K
Sbjct: 167 ADSKSHVAHMDNGDFYGSEKAALIGAPGSVKIELIAK 203
>2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l3c_A
Length = 73
Score = 28.4 bits (64), Expect = 2.3
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 1161 PKSPIRELLELEPENA-RFSKPEKLADGRRVRVTVEVFGKGSYKGIGRNYCIAKCTAAKC 1219
PK+ + +L E++P ++VEV G+ ++G G AK AA+
Sbjct: 6 PKNALMQLNEIKPGLQYMLLSQTGPVHAPLFVMSVEVNGQ-VFEGSGPTKKKAKLHAAEK 64
Query: 1220 ALKHLK 1225
AL+
Sbjct: 65 ALRSFV 70
>1paq_A Translation initiation factor EIF-2B epsilon subunit; heat repeat,
AA motif; 2.30A {Saccharomyces cerevisiae} SCOP:
a.118.1.14
Length = 189
Score = 30.0 bits (67), Expect = 3.3
Identities = 9/55 (16%), Positives = 20/55 (36%), Gaps = 6/55 (10%)
Query: 587 MFSDDEDSNDDLSSVDFDVE------DDFRENEKEDTLQIQFKGKYSAEAICEGE 635
+++D E+ + + DF+ E N DT ++ + + E
Sbjct: 6 IYTDREEIDSEFEDEDFEKEGIATVERAMENNHDLDTALLELNTLRMSMNVTYHE 60
>2okc_A Type I restriction enzyme stysji M protein; NP_813429.1, N-6 DNA
methylase, type I restriction enzyme ST protein; HET:
SAM; 2.20A {Bacteroides thetaiotaomicron vpi-5482} SCOP:
c.66.1.45
Length = 445
Score = 30.7 bits (70), Expect = 3.4
Identities = 10/60 (16%), Positives = 25/60 (41%), Gaps = 3/60 (5%)
Query: 682 ELIKNRIDVENTIKENQPVHIVRQSFDNASNPSKNTAILTEILENINKLNTYGSVEKDVK 741
+L+K + + E + + + A N L +++ I++ + ++ DVK
Sbjct: 75 DLVKQYEETLKLLSELDNL--IGTIYTKAQNKIDKPVYLKKVITMIDEEQ-WLIMDGDVK 131
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein,
transfe two-component regulatory system; 3.80A
{Thermotoga maritima}
Length = 349
Score = 30.7 bits (70), Expect = 3.4
Identities = 13/69 (18%), Positives = 29/69 (42%), Gaps = 13/69 (18%)
Query: 1125 SVAGAI-YLDSGMSLDTVWKVYYEIMKSEIERLSVSVPKSPIRELLELEPENARFSKPEK 1183
+ G I + + K Y I+ +E+ RL ++ ++E+LE +SK +
Sbjct: 149 IIGGFIMRMKKHLDDPETLKKYINIITNELSRL-----ETIVKEILE-------YSKERQ 196
Query: 1184 LADGRRVRV 1192
+ + +
Sbjct: 197 VLEFTEFNL 205
>2ar0_A M.ecoki, type I restriction enzyme ecoki M protein; structural
genomics, protein structure initiative, nysgxrc; 2.80A
{Escherichia coli} SCOP: c.66.1.45 PDB: 2y7c_B 2y7h_B*
Length = 541
Score = 30.1 bits (68), Expect = 5.9
Identities = 11/67 (16%), Positives = 29/67 (43%), Gaps = 7/67 (10%)
Query: 678 EGQLELIKNRIDVENTIKENQPVHIVRQSFDNASNPSKNTAILTEILENINKLNTYGS-- 735
+ QL+ + + + ++++ +V+ F N S +T ++ N++ L+ Y
Sbjct: 67 QEQLQFYRKML--VHLGEDDKK--LVQAVFHNVSTTITEPKQITALVSNMDSLDWYNGAH 122
Query: 736 -VEKDVK 741
+D
Sbjct: 123 GKSRDDF 129
>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein; 2.60A
{Homo sapiens}
Length = 232
Score = 29.3 bits (65), Expect = 7.0
Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 12/63 (19%)
Query: 1162 KSPIRELLELEPENARFSKPEKLADGRRVRVTVEVFGKGSYKGIGRNYCIAKCTAAKCAL 1221
P+ E E + F +V + G G + +AK AA+ L
Sbjct: 38 VRPVYNFFECENPSEPF------------GASVTIDGVTYGSGTASSKKLAKNKAARATL 85
Query: 1222 KHL 1224
+ L
Sbjct: 86 EIL 88
>3kyf_A PP4397, putative uncharacterized protein; C-DI-GMP, PILZ domain,
VCA0042, unknown function; HET: 5GP; 2.10A {Pseudomonas
putida} PDB: 2gjg_A
Length = 231
Score = 29.3 bits (65), Expect = 7.3
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 3/68 (4%)
Query: 1020 LGDAILDYLITRHLYEDERAHSPGTLTDLRSALVNNIIFASL-AVRLGFHHFFKHLSPGL 1078
+ D L +YE +A +P L D L + + G F +LS
Sbjct: 160 FEGNVEDRLQLGQVYERFKAGNPLGLVDTMVELRHLHYEERINTTFAGVR--FHNLSGQA 217
Query: 1079 HEVIQRFV 1086
I+ FV
Sbjct: 218 QRKIESFV 225
>4a17_O RPL19, 60S ribosomal protein L5; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila}
Length = 185
Score = 28.9 bits (64), Expect = 7.4
Identities = 12/57 (21%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 1151 SEIERLSVSVPKSPIRELLELEPENARFSKPEKLADGRRVRVTVEVFGKGSYKGIGR 1207
+E +S++ ++ IR+L++ + + + R R +E KG + G G+
Sbjct: 27 NESSEISMANSRASIRKLIK---DGLVMKRSTVIHSRSRARAFLEAKRKGRHTGSGK 80
>4exj_A Uncharacterized protein; transferase-like protein, transcription
regulation, transfer structural genomics; 1.64A
{Lodderomyces elongisporus nrrl yb-4239}
Length = 238
Score = 29.2 bits (66), Expect = 7.7
Identities = 12/73 (16%), Positives = 23/73 (31%), Gaps = 6/73 (8%)
Query: 1023 AILDYLITRHLYEDERAHSPGTLTDLRS-ALVNNIIF---ASLAVRLGFHHFFKHLSPGL 1078
IL Y+ Y+ E D + N ++F + + + +
Sbjct: 70 NILLYIADT--YDKEHKFFYSLKQDPKLYWEQNELLFYQATQFQSQTLTIANANYQNGHI 127
Query: 1079 HEVIQRFVKMQAE 1091
E I ++V E
Sbjct: 128 DENIAQYVLSSFE 140
>3f6d_A Adgstd4-4, glutathione transferase GST1-4; HET: GTX; 1.70A {Anopheles
dirus} PDB: 3f63_A* 1jlw_A* 3g7i_A* 3g7j_A*
Length = 219
Score = 28.7 bits (65), Expect = 9.7
Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 4/69 (5%)
Query: 1023 AILDYLITRHLYEDERAHSPGTLTDLRS-ALVNNIIF---ASLAVRLGFHHFFKHLSPGL 1078
AI YL+ ++ D +D R A+V+ +F A L R +++ + +
Sbjct: 68 AIQIYLVEKYGAHDADLAERLYPSDPRRRAVVHQRLFFDVAVLYQRFAEYYYPQIAGQKV 127
Query: 1079 HEVIQRFVK 1087
++
Sbjct: 128 PVGDPGRLR 136
>2gsl_A Hypothetical protein; alpha-helical protein, structural genomics,
PSI, protein STR initiative; 2.60A {Fusobacterium
nucleatum subsp}
Length = 137
Score = 27.9 bits (62), Expect = 9.8
Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 11/71 (15%)
Query: 1017 LEFLGDAILDYLITRHLYEDERAHSPGTLTDLRSALVNNIIFASLAVRLGFHHFFKHLSP 1076
L FLGDAI + I ++ + ++ TL A VN +K +
Sbjct: 18 LAFLGDAIWELEIRKYYL--QFGYNIPTLNKYVKAKVN---------AKYQSLIYKKIIN 66
Query: 1077 GLHEVIQRFVK 1087
L E + K
Sbjct: 67 DLDEEFKVIGK 77
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
0.318 0.135 0.402
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 19,010,837
Number of extensions: 1170565
Number of successful extensions: 2403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2340
Number of HSP's successfully gapped: 95
Length of query: 1233
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1128
Effective length of database: 3,770,088
Effective search space: 4252659264
Effective search space used: 4252659264
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 (21.7 bits)
S2: 63 (28.6 bits)