RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3979
(286 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 = 173 bits (440), Expect = 3e-53
Identities = 74/186 (39%), Positives = 106/186 (56%), Gaps = 22/186 (11%)
Query: 98 PEQARGLDPLRYIPECTQLEKRINYTFQDKSFLLQALSHPTYNANRITTSYQRLEFLGDA 157
P+ + L+ L I EK+INY F++K++LLQA +H +Y+ N IT YQRLEFLGDA
Sbjct: 2 PDAEKTLNHL--ISGFETFEKKINYRFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDA 59
Query: 158 IIDFLVTAYLYENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLLHDSPRLYENVT 217
I+D+L+T +LYE+ SPG ++D+RSA+VNN FAS AV+ D HK+ SP L+ +
Sbjct: 60 ILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVID 119
Query: 218 RFAQNQEARNHEISDEEEEEEEEEGIVRCLIFFLIEEKDVQTDVYGRVVEYVDVPKALGD 277
F + Q +N + E EE E ++VPKA+GD
Sbjct: 120 DFVKFQLEKNEMQGMDSELRRSEED--------------------EEKEEDIEVPKAMGD 159
Query: 278 VFEALV 283
+FE+L
Sbjct: 160 IFESLA 165
>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 = 105 bits (264), Expect = 1e-27
Identities = 33/92 (35%), Positives = 57/92 (61%), Gaps = 3/92 (3%)
Query: 115 QLEKRINYTFQDKSFLLQALSHPTYNANRITTSYQRLEFLGDAIIDFLVTAYLYENFSHL 174
QLEK++ YTF+DKS L +AL+H +Y+ Y+ LEFLGDA+++F + L + +
Sbjct: 6 QLEKKLGYTFKDKSLLEKALTHVSYSKKE---HYETLEFLGDALVNFFIVDLLVQYSPNK 62
Query: 175 SPGEISDIRSAMVNNVTFASYAVRLDLHKHLL 206
G +S +++ +++ F A +L+LHK +
Sbjct: 63 REGFLSPLKAYLISEEFFNLLAQKLELHKFIR 94
>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 = 106 bits (266), Expect = 1e-27
Identities = 26/98 (26%), Positives = 50/98 (51%), Gaps = 6/98 (6%)
Query: 115 QLEKRINYTFQDKSFLLQALSHPTY-NANRITT-----SYQRLEFLGDAIIDFLVTAYLY 168
+ +K F+++ L +AL H +Y N S ++LEFLGDA+++ V LY
Sbjct: 23 EFQKETGINFKNEELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVCEILY 82
Query: 169 ENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLL 206
+ + G+++ ++SA + A + +++L K L
Sbjct: 83 KKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLF 120
>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862,
csgid, structura genomics; 2.21A {Campylobacter jejuni
subsp}
Length = 248
Score = 105 bits (265), Expect = 2e-27
Identities = 35/93 (37%), Positives = 61/93 (65%), Gaps = 3/93 (3%)
Query: 114 TQLEKRINYTFQDKSFLLQALSHPTYNANRITTSYQRLEFLGDAIIDFLVTAYLYENFSH 173
+LE+ + Y F+DK+ L+ AL+H ++ + + +RLEFLGDA++D +V YL+ F+
Sbjct: 29 EKLEQSLTYEFKDKNLLIHALTHKSFKKSY---NNERLEFLGDAVLDLVVGEYLFHKFAK 85
Query: 174 LSPGEISDIRSAMVNNVTFASYAVRLDLHKHLL 206
+ G++S +R+A+VN +FA A L+L +L
Sbjct: 86 DAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 118
>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 = 103 bits (258), Expect = 3e-27
Identities = 35/93 (37%), Positives = 61/93 (65%), Gaps = 3/93 (3%)
Query: 114 TQLEKRINYTFQDKSFLLQALSHPTYNANRITTSYQRLEFLGDAIIDFLVTAYLYENFSH 173
+LE+ + Y F+DK+ L+ AL+H ++ + + +RLEFLGDA++D +V YL+ F+
Sbjct: 29 EKLEQSLTYEFKDKNLLIHALTHKSFKKSY---NNERLEFLGDAVLDLVVGEYLFHKFAK 85
Query: 174 LSPGEISDIRSAMVNNVTFASYAVRLDLHKHLL 206
+ G++S +R+A+VN +FA A L+L +L
Sbjct: 86 DAEGDLSKLRAALVNEKSFAKIANSLNLGDFIL 118
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic
protein structure initiative; 2.10A {Mycobacterium
tuberculosis}
Length = 242
Score = 99 bits (250), Expect = 2e-25
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 5/97 (5%)
Query: 114 TQLEKRINYTFQDKSFLLQALSHPTY-NANRITTSYQRLEFLGDAIIDFLVTAYLYENFS 172
L + D+ L AL+H +Y N + +RLEFLGDA++ +T L+
Sbjct: 8 QPLLDALGVDLPDE-LLSLALTHRSYAYENGGLPTNERLEFLGDAVLGLTITDALFHRHP 66
Query: 173 HLSPGEISDIRSAMVNNVTFASYAVRL---DLHKHLL 206
S G+++ +R+++VN A A RL L H+L
Sbjct: 67 DRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHVL 103
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A
{Vanderwaltozyma polyspora}
Length = 341
Score = 96.4 bits (240), Expect = 3e-23
Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 9/102 (8%)
Query: 114 TQLEKRINY-TFQDKSFLLQALSHPTY--------NANRITTSYQRLEFLGDAIIDFLVT 164
T ++ I Y D++ A H ++ +A + S +RLEFLGD+ + LV+
Sbjct: 86 TDVDMFIKYPVVYDENLENLAFMHKSFPNMNAHLNDAQKTQLSNERLEFLGDSWLGALVS 145
Query: 165 AYLYENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLL 206
+Y F + G +S ++ ++VNN ++ +L+ K L
Sbjct: 146 YIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQ 187
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase;
3.00A {Giardia intestinalis} PDB: 2ffl_A
Length = 756
Score = 96.6 bits (240), Expect = 1e-22
Identities = 32/147 (21%), Positives = 52/147 (35%), Gaps = 11/147 (7%)
Query: 63 IEGAMLFLQALNILPQSKIDVHEALYGPHPSAVRCPEQARGLDPLRY---IPECTQLEKR 119
E ++ +QAL LP+ + + P+ R + +
Sbjct: 254 DEFDLIRVQALQFLPEIAKHICDIQNTICALDKSFPDCGRIGGERYFAITAGLRLDQGRG 313
Query: 120 INYTFQDKSFLLQALSHPTYNANRITTSYQRLEFLGDAIIDFLVTAYLYENFSHLSPGEI 179
F +SH T +QRLE LGDA++ F+VTA L F S G +
Sbjct: 314 RGLAGWRTPFGPFGVSH--------TDVFQRLELLGDAVLGFIVTARLLCLFPDASVGTL 365
Query: 180 SDIRSAMVNNVTFASYAVRLDLHKHLL 206
+++ +V N L L +
Sbjct: 366 VELKMELVRNEALNYLVQTLGLPQLAE 392
Score = 86.9 bits (215), Expect = 2e-19
Identities = 17/92 (18%), Positives = 30/92 (32%), Gaps = 9/92 (9%)
Query: 116 LEKRINYTFQDKSFLLQALSHPTYNANRITTSYQRLEFLGDAIIDFLVTAYLYENFSHLS 175
+ L AL+ YQ+LE LGDA + + +L+ L+
Sbjct: 624 VPIPSGTIPFLIRLLQIALTPH---------VYQKLELLGDAFLKCSLALHLHALHPTLT 674
Query: 176 PGEISDIRSAMVNNVTFASYAVRLDLHKHLLH 207
G ++ +R + N R +
Sbjct: 675 EGALTRMRQSAETNSVLGRLTKRFPSVVSEVI 706
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A
{Vanderwaltozyma polyspora}
Length = 246
Score = 92.2 bits (229), Expect = 2e-22
Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 9/102 (8%)
Query: 114 TQLEKRINY-TFQDKSFLLQALSHPTY--------NANRITTSYQRLEFLGDAIIDFLVT 164
T ++ I Y D++ A H ++ +A + S +RLEFLGD+ + LV+
Sbjct: 86 TDVDMFIKYPVVYDENLENLAFMHKSFPNMNAHLNDAQKTQLSNERLEFLGDSWLGALVS 145
Query: 165 AYLYENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLL 206
+Y F + G +S ++ ++VNN ++ +L+ K L
Sbjct: 146 YIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQ 187
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 41.0 bits (95), Expect = 4e-04
Identities = 52/330 (15%), Positives = 106/330 (32%), Gaps = 103/330 (31%)
Query: 1 MEFLSNLDFDLYQDPTEDGKKVSSPEKLPSSSYNFLDRIKLGDK-------VVADVVESL 53
+E L L + + + T S+ + S L R+ L K V+ +V +
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL-LKSKPYENCLLVLLNVQNAK 257
Query: 54 TGVYLRSCGIEGAMLFLQALNILPQSKI-------DVHEALYGPHPSAVRCPEQARGLDP 106
A N+ KI V + L + + + L P
Sbjct: 258 A---------------WNAFNL--SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 107 LRYIPECTQL-EKRINYTFQDKSFL-LQALS-HPTYNANRITTSYQRLEFLGDAIIDFLV 163
E L K ++ QD L + L+ +P +RL + ++I D L
Sbjct: 301 ----DEVKSLLLKYLDCRPQD---LPREVLTTNP-----------RRLSIIAESIRDGLA 342
Query: 164 TAYLYENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLLHDSPRLYENVTRFAQNQ 223
T ++N+ H++ +++ I + +N + A Y R ++++ ++ F +
Sbjct: 343 T---WDNWKHVNCDKLTTIIESSLNVLEPAEY--R------------KMFDRLSVFPPSA 385
Query: 224 EARNHEISDE-------EEEEEEEEGIVRCLIFFLIEEKDVQTDVYG------------- 263
I + + + +V L + + EK +
Sbjct: 386 H-----IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 264 -------RVVEYVDVPKAL-GDVFEALVED 285
+V++ ++PK D D
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Score = 39.8 bits (92), Expect = 0.001
Identities = 43/264 (16%), Positives = 77/264 (29%), Gaps = 82/264 (31%)
Query: 3 FLSNLDFD----LYQD----PTEDGKKVSSPEKLPSSSYNFLDRI--KLGDKVVADVVES 52
L+ L+ ++ P P L L I + V VV
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFP-PS---AHIPTIL-------LSLIWFDVIKSDVMVVVNK 410
Query: 53 LTGVYLRSCGIEGAMLFLQALNILPQSKIDVHEALYGPHPSAVRCPEQARGLDP------ 106
L L + + + + ++ + + K++ AL H S V + D
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL---HRSIVDHYNIPKTFDSDDLIPP 467
Query: 107 ------LRYIP----ECTQLEKRINYT--FQDKSFLLQALSHPTYNAN------------ 142
+I E+ + F D FL Q + H + N
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 143 -----RITTSYQRLEFLGDAIIDFLVTAYLYENFSHLSPGEISDIRSAMVNNVTFASYAV 197
I + + E L +AI+DFL E +L + +D+
Sbjct: 528 KFYKPYICDNDPKYERLVNAILDFLPK---IE--ENLICSKYTDL--------------- 567
Query: 198 RLDLHKHLLHDSPRLYENVTRFAQ 221
L L+ + ++E + Q
Sbjct: 568 ---LRIALMAEDEAIFEEAHKQVQ 588
Score = 37.5 bits (86), Expect = 0.005
Identities = 41/317 (12%), Positives = 84/317 (26%), Gaps = 109/317 (34%)
Query: 6 NLDFDL------YQDPTEDGKKVSSPEKLPSSSYNFLDRIKLGDKVVADVVESLTGVYLR 59
++DF+ Y+D F D + DV + +
Sbjct: 6 HMDFETGEHQYQYKDILSV----------------FEDAFV-DNFDCKDVQDMPKSIL-- 46
Query: 60 SCGIEGAMLFLQALNILPQSKIDVHEALYGPHP-SAVR------CPEQARGLDPLRYIPE 112
SK ++ + S +Q + +++ E
Sbjct: 47 -------------------SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ--KFVEE 85
Query: 113 CTQ-----LEKRINYTFQDKSFLLQALSH---PTYNANRITTSYQ--RLEFLGDAIIDFL 162
+ L I + S + + YN N++ Y RL+ L
Sbjct: 86 VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ-----PYLKL 140
Query: 163 VTAYLYENFSHLSPGEI---------------------SDIRSAMVNNV---TFASY--- 195
A L E L P + ++ M + +
Sbjct: 141 RQA-LLE----LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
Query: 196 AVRLDLHKHLLHDSPRLYENVTRFAQNQEARNHEISDEEEEEEEEEGIVRCLIFFLIEEK 255
L++ + LL+ + + + + N + R H I E + + CL+
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL------- 248
Query: 256 DVQTDVY-GRVVEYVDV 271
V +V + ++
Sbjct: 249 -VLLNVQNAKAWNAFNL 264
>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 = 37.7 bits (87), Expect = 0.005
Identities = 44/237 (18%), Positives = 72/237 (30%), Gaps = 83/237 (35%)
Query: 5 SNLDFDLYQDPTEDGKKVSSP--------------------EKLPSSS------YNFLDR 38
++L + +D E+ + V SP LP+ N
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN---- 372
Query: 39 IKLGDK--VVADVVESLTGV--YLRSCGIEGAMLFLQALNILPQSKIDVHEALYGPHPSA 94
G K VV+ +SL G+ LR +A + L QS+I P +
Sbjct: 373 ---GAKNLVVSGPPQSLYGLNLTLRK---------AKAPSGLDQSRI----------PFS 410
Query: 95 VRCPE-QARGLDPLRYIPECTQL----EKRINYTFQDKSFLLQA--LSHPTYNANRITTS 147
R + R L P+ P + L IN + A + P Y+ T
Sbjct: 411 ERKLKFSNRFL-PV-ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD----TFD 464
Query: 148 YQRLEFLGDAIIDFLV----------TAYLYENFSHL---SPGEISDIRSAMVNNVT 191
L L +I + +V +H+ PG S + + +
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL-GVLTHRNK 520
Score = 32.7 bits (74), Expect = 0.15
Identities = 49/300 (16%), Positives = 91/300 (30%), Gaps = 107/300 (35%)
Query: 22 VSSPEKLPSSSY-----------------NFLDRIKLGDKVVADVVESLTGVYLRSCGIE 64
+ +P P Y +++ KL ++ L G S G+
Sbjct: 219 LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 65 GAMLF-------------LQALNILPQSKIDVHEALYGPH----PSAVR-CPEQARGLDP 106
A+ +A+ +L + +EA P+ PS + E G+ P
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY--PNTSLPPSILEDSLENNEGV-P 335
Query: 107 -----LRYIPECTQLEKRINYTFQ---------------DKSFL-------LQALSH--- 136
+ + + Q++ +N T K+ + L L+
Sbjct: 336 SPMLSISNLTQE-QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 137 -----PTYNANRITTSYQRLEFLGDAIIDFL-VTAYLYENF--SHLSPGEISDIRSAMVN 188
+ +RI S ++L+F FL V + F L P + + N
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKF----SNRFLPVAS----PFHSHLLVPASDLINKDLVKN 446
Query: 189 NVTFASYAVRLDLHKHLLHDSPRLYENVTRFAQNQEARNHEISDEEEEEEEEEGIVRCLI 248
NV+F + D+ + T + + IS+ IV C+I
Sbjct: 447 NVSFNAK----DIQIPVYD---------TFDGSDLRVLSGSISER---------IVDCII 484
Score = 29.2 bits (65), Expect = 2.1
Identities = 16/98 (16%), Positives = 34/98 (34%), Gaps = 19/98 (19%)
Query: 194 SYAVR-LDLH----KHLLHDSPRLYENVTR----FAQNQEARNHEISDEEEEEEEEEGIV 244
+Y+ R L L +H+L + ++ F + + ++E E +
Sbjct: 3 AYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 245 RCLIF--FLIEEKDVQTDVYGRVVEYVDVPKALGDVFE 280
+ L + L+E +V ++ V FE
Sbjct: 63 KFLGYVSSLVEP--------SKVGQFDQVLNLCLTEFE 92
>3arc_D Photosystem II reaction center D2 protein; PSII, membrane-protein
complex, transmembrane alpha-helix, E transport,
photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT
HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus}
PDB: 3bz1_D* 1izl_D* 1s5l_D* 1w5c_D* 2axt_D* 3bz2_D*
3kzi_D* 3prq_D* 3prr_D* 3a0b_D* 3a0h_D*
Length = 342
Score = 31.2 bits (69), Expect = 0.34
Identities = 15/95 (15%), Positives = 30/95 (31%), Gaps = 17/95 (17%)
Query: 157 AIIDFLVTAYLYENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLLHDSPRLYENV 216
AI FL+ + N+ L+P + + + + A +H + EN
Sbjct: 167 AIFRFLLFFQGFHNW-TLNPFHMMGVAGVLGGALLCA------------IHGA--TVENT 211
Query: 217 TRFAQNQEARNHEISDEEEEEEEEEGIVRCLIFFL 251
+ + + EE +V F+
Sbjct: 212 LFQDGEGA--STFRAFNPTQAEETYSMVTANRFWS 244
>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 = 29.5 bits (66), Expect = 0.56
Identities = 10/63 (15%), Positives = 25/63 (39%), Gaps = 1/63 (1%)
Query: 151 LEFLGDAIIDFLVTAYLYENFSHLSPGEISDIRSAMVNNVTFASYAVRLDLHKHLLHDSP 210
L ++GDA+ + + +L + P ++ + ++ V+ A L L +
Sbjct: 15 LAYMGDAVYEQYIRYHLL-QKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTEEEE 73
Query: 211 RLY 213
+
Sbjct: 74 AVL 76
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D*
Length = 197
Score = 30.1 bits (67), Expect = 0.61
Identities = 19/55 (34%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 190 VTFASYAVRLDLHKH--LLHDSPRLYENVTRFAQNQEARNHEISDEEEEEEEEEG 242
V S+ VRLD KH SP R A+ AR E S E +E +E
Sbjct: 141 VNIPSFMVRLDSEKHIDFAPTSPFGGARPGRVARRNAARKAEASGEAADEADEAD 195
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.7
Identities = 6/27 (22%), Positives = 14/27 (51%)
Query: 214 ENVTRFAQNQEARNHEISDEEEEEEEE 240
E++ ++ + Q R E+ + E+E
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQE 111
>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase,
MOAD, MOAE, transferase, molybdenum cofactor
biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*
Length = 77
Score = 27.1 bits (61), Expect = 1.9
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 2/38 (5%)
Query: 200 DLHKHLLHDSPRLYENVTRFAQNQE--ARNHEISDEEE 235
L P++ + A N+E ++ I +
Sbjct: 30 QFEDLLFERYPQINNKKFQVAVNEEFVQKSDFIQPNDT 67
>1gxl_A SMC, chromosome segregation SMC protein; SMC dimerisation domain,
anti parallel coiled coil, SMC proteins; 3.0A
{Thermotoga maritima} SCOP: d.215.1.1
Length = 213
Score = 28.0 bits (63), Expect = 3.1
Identities = 12/74 (16%), Positives = 23/74 (31%), Gaps = 12/74 (16%)
Query: 221 QNQEARNHEISDEEEEEEEEEGIVRCLIFFLIEEKDVQTDVYGRVVEYVDVPK------- 273
+ + I + E VR + EEK+ + V ++V +
Sbjct: 8 REIQFEKEMIERDMREYRGFSRAVR----AVFEEKERFPGLVDVVSNLIEVDEKYSLAVS 63
Query: 274 -ALGDVFEALVEDT 286
LG + +V
Sbjct: 64 VLLGGTAQNIVVRN 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 0.137 0.391
Gapped
Lambda K H
0.267 0.0521 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,540,843
Number of extensions: 277904
Number of successful extensions: 734
Number of sequences better than 10.0: 1
Number of HSP's gapped: 709
Number of HSP's successfully gapped: 31
Length of query: 286
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 193
Effective length of database: 4,105,140
Effective search space: 792292020
Effective search space used: 792292020
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: 57 (26.2 bits)