RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 018674
(352 letters)
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 352 bits (905), Expect = e-119
Identities = 109/348 (31%), Positives = 191/348 (54%), Gaps = 15/348 (4%)
Query: 6 RVLHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFY 65
++ + PEV+ R+VP RE+ ++T ++L ++ V +++P+YGI D F
Sbjct: 2 GARDIIYALERWFPEVERPKRRVPLRERFMWTGVALILYYVLAEIPVYGI-PERIQDYFQ 60
Query: 66 WMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGII 125
++RV+LA G+++ LGI PIVT+G+++QLL GS+II++D EDR Q++ +
Sbjct: 61 FLRVVLAGRNGSILTLGIGPIVTAGIILQLLVGSEIIKLDLANPEDRRFYQALQRVFSVF 120
Query: 126 IAIGEAVAYVLSGMYGS-VNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISL 184
+ EA ++L G +G + A+L+I+QL GI++I LDEL+ K +G+GSGISL
Sbjct: 121 MCFFEAAVWILGGAFGRVGVDVTYAIAVLMILQLAMGGIVLIILDELVSK-WGIGSGISL 179
Query: 185 FIATNICENIIWKAFSPTT-INSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLP 243
FIA + + I+ ++ +P T N + A++ I K + + P
Sbjct: 180 FIAAGVSQTILTRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGDLWGAIYRGGSAP 239
Query: 244 NVTNLLATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSN 303
++ +++AT+++F IV+YF+ RV +P+ + +GSYPI+ Y SN+PIIL AL +N
Sbjct: 240 DMLSVVATIVVFFIVVYFESMRVEIPLGYR-GVTVRGSYPIRFLYVSNIPIILTFALYAN 298
Query: 304 LYFISQLMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPS 351
+ ++++ LG++ P+ G Y+ P
Sbjct: 299 IQLWARVL-----DRLGHPWLGRF-----DPTTGSPISGFVLYVIPPR 336
>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome,
protein EXIT tunnel, cotranslational protein
translocation, protein conducting channel; 6.48A {Canis
lupus familiaris}
Length = 476
Score = 350 bits (899), Expect = e-118
Identities = 230/349 (65%), Positives = 287/349 (82%), Gaps = 2/349 (0%)
Query: 4 GFRVLHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADP 63
+ L +++PF LPE+Q +RK+ F+EKV++T I+LFIFLVC Q+PL+GI S+ ADP
Sbjct: 2 AIKFLEVIKPFCVILPEIQKPERKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDSADP 61
Query: 64 FYWMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLG 123
FYWMRVILASNRGT+MELGI+PIVTSGL+MQLLAG+KIIEV + +DRAL NGAQKL G
Sbjct: 62 FYWMRVILASNRGTLMELGISPIVTSGLIMQLLAGAKIIEVGDT-PKDRALFNGAQKLFG 120
Query: 124 IIIAIGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGIS 183
+II IG+++ YV++GMYG +++G G +LI +QL AG+IV+ LDELLQKGYGLGSGIS
Sbjct: 121 MIITIGQSIVYVMTGMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGIS 180
Query: 184 LFIATNICENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLP 243
LFIATNICE I+WKAFSPTT+N+GRG EFEGA+IALFHLL TR DKVRALREAFYRQNLP
Sbjct: 181 LFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLP 240
Query: 244 NVTNLLATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSN 303
N+ NL+AT+ +F +VIYFQGFRV LP++S RGQ +YPIKLFYTSN+PIILQSALVSN
Sbjct: 241 NLMNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVSN 300
Query: 304 LYFISQLMYRRYSGNFFVNLLGKWKESEYSG-GQYVPVGGIAYYITAPS 351
LY ISQ++ R+SGN V+LLG W ++ G + PVGG+ +Y++ P
Sbjct: 301 LYVISQMLSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPE 349
>1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY,
membrane protein, protein channels, protein transport;
3.20A {Methanocaldococcus jannaschii} SCOP: f.41.1.1
PDB: 1rhz_A 2yxq_A 3dkn_A 2yxr_A 3bo0_A 3bo1_A 3kcr_A
Length = 436
Score = 343 bits (881), Expect = e-116
Identities = 116/344 (33%), Positives = 184/344 (53%), Gaps = 40/344 (11%)
Query: 8 LHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWM 67
+ + P L +PEV+ +++ F+EK+ +T I L ++ + + +Y + F +
Sbjct: 1 MKKLIPILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIP-AIFEFW 59
Query: 68 RVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIA 127
+ I AS GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+
Sbjct: 60 QTITASRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMC 119
Query: 128 IGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIA 187
EAV +V +G +G L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA
Sbjct: 120 FVEAVLFVGAGAFG---ILTPLLAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIA 175
Query: 188 TNICENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPNVTN 247
+ + I A P EG + + LI N+ +
Sbjct: 176 AGVSQTIFVGALGP-----------EGYLWKFLNSLIQG------------VPNIEYIAP 212
Query: 248 LLATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFI 307
++ T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 213 IIGTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLW 272
Query: 308 SQLMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPS 351
+Y + +LG ++ V GIAYY++ P
Sbjct: 273 GLALY-----RMGIPILGHYEGGR-------AVDGIAYYLSTPY 304
>2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane,
phospho signal sequence, membrane, ribosome, transport;
8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A
Length = 490
Score = 293 bits (751), Expect = 4e-96
Identities = 109/359 (30%), Positives = 181/359 (50%), Gaps = 15/359 (4%)
Query: 3 GGFRVLHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIH---STT 59
GFR++ +V+P L LPEV+ K+PF +K++YT+ + I+L Q PL G+ +
Sbjct: 2 SGFRLIDIVKPILPILPEVELPFEKLPFDDKIVYTIFAGLIYLFA-QFPLVGLPKATTPN 60
Query: 60 GADPFYWMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQ 119
DP Y++R + T++E G+ P ++SGL++QLLAG K+I+V+ ++ DR L
Sbjct: 61 VNDPIYFLRGVFGCEPRTLLEFGLFPNISSGLILQLLAGLKVIKVNFKIQSDRELFQSLT 120
Query: 120 KLLGIIIAIGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLG 179
K+ I+ + ++ +G +G L V LI QL AGI L E++ KG+G
Sbjct: 121 KVFAIVQYVILTNIFIFAGYFGD--DLSVVQIGLINFQLVGAGIFTTLLAEVIDKGFGFS 178
Query: 180 SGISLFIATNICENIIWKAFSPTTINSGRG--AEFEGAVIALFHLLITRNDK-VRALREA 236
SG + I N++ F + I G E +GA+I L L +++ + + A
Sbjct: 179 SGAMIINTVVIATNLVADTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGIISA 238
Query: 237 FYRQNLPNVTNLLATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIIL 296
F R LPN+T + + I +IV Y Q RV LP+RS ARG YPIKL YT + ++
Sbjct: 239 FNRDYLPNLTTTIIVLAIAIIVCYLQSVRVELPIRSTRARGTNNVYPIKLLYTGCLSVLF 298
Query: 297 QSALVSNL----YFISQLMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPS 351
++ + + + QL+ + + ++G + + VP ++ S
Sbjct: 299 SYTILFYIHIFAFVLIQLVAKNEPTHIICKIMGHY--ENANNLLAVPTFPLSLLAPPTS 355
>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein,
nucleotide-binding, PR biosynthesis, translation,
zinc-finger, 70S ribosome, ribos translocon; 7.10A
{Escherichia coli 536} PDB: 2akh_Y 2aki_Y
Length = 435
Score = 43.3 bits (103), Expect = 7e-05
Identities = 57/311 (18%), Positives = 117/311 (37%), Gaps = 65/311 (20%)
Query: 20 EVQSADRKVP-FREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL------- 71
+ QSA + + ++++ + +L +F + S +P+ GI + A R +
Sbjct: 1 DFQSAKGGLGELKRRLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMF 60
Query: 72 ---ASNRGTVMELGITPIVTSGLVMQLLAGS--KIIEVDNNVREDRALLNGAQKLLGIII 126
A +R ++ LGI P +++ +++QLL + E+ R ++ + +++
Sbjct: 61 SGGALSRASIFALGIMPYISASIIIQLLTVVHPTLAEIKKEGESGRRKISQYTRYGTLVL 120
Query: 127 AIGEAVAYVL-----SGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSG 181
AI +++ GM G V G +V L + ++ L E + + G+G+G
Sbjct: 121 AIFQSIGIATGLPNMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGEQITE-RGIGNG 179
Query: 182 ISLFIATNICENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQN 241
IS+ I I A A+ RQ
Sbjct: 180 ISIIIFAGIV------------------AGLPPAIAHTIEQA---------------RQG 206
Query: 242 LPNVTNLLATVLIFLIVIYF-----QGFRVVLPV------RSKNARGQQGSY-PIKLFYT 289
+ LL ++ V +F +G R + V + + Q ++ P+K+
Sbjct: 207 DLHFLVLLLVAVLVFAVTFFVVFVERGQRRI-VVNYAKRQQGRRVYAAQSTHLPLKVNMA 265
Query: 290 SNMPIILQSAL 300
+P I S++
Sbjct: 266 GVIPAIFASSI 276
>3din_C Preprotein translocase subunit SECY; protein translocation,
membrane protein, ATPase, ATP-binding membrane,
nucleotide-binding, protein transport; HET: ADP; 4.50A
{Thermotoga maritima MSB8}
Length = 431
Score = 41.4 bits (98), Expect = 3e-04
Identities = 59/319 (18%), Positives = 118/319 (36%), Gaps = 63/319 (19%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILASN---------------R 75
R+++I+T ++L +F + +P+ G++ + F + R
Sbjct: 15 RDRIIFTFLALIVFRMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTGGALSR 74
Query: 76 GTVMELGITPIVTSGLVMQLLAGS--KIIEVDNNVREDRALLNGAQKLLGIIIAIGEAVA 133
+V + +TP +T+ +++QLLA + E+ E R + L ++I +A
Sbjct: 75 FSVFTMSVTPYITASIILQLLASVMPSLKEMLREGEEGRKKFAKYTRRLTLLIGGFQAFF 134
Query: 134 YVLS-----GMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIAT 188
S + + +L + + + ++ L E + + G+G+GIS+ I
Sbjct: 135 VSFSLARSNPDMVAPGVNVLQFTVLSTMSMLAGTMFLLWLGERITE-KGIGNGISILIFA 193
Query: 189 NICENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPNVTNL 248
I P+ I + G + L + +
Sbjct: 194 GIVARY------PSYI----RQAYLGGLNLLEWIFLI----------------------A 221
Query: 249 LATVLIFLIVIYFQGFRVVLPV------RSKNARGQQGSY-PIKLFYTSNMPIILQSALV 301
+A + IF I++ Q R + + + G +Y PIK+ +PII SA+V
Sbjct: 222 VALITIFGIILVQQAERRI-TIQYARRVTGRRVYGGASTYLPIKVNQGGVIPIIFASAIV 280
Query: 302 SNLYFISQLMYRRYSGNFF 320
S I+ + N F
Sbjct: 281 SIPSAIASITNNETLKNLF 299
>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 = 40.8 bits (95), Expect = 6e-04
Identities = 53/347 (15%), Positives = 97/347 (27%), Gaps = 128/347 (36%)
Query: 7 VLHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLF--IFLVCSQLPLYG--IHSTTGAD 62
LV FL ++ + + F + V+ ++ F + L G IH+
Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQ-VLNLCLTEFENCY-------LEGNDIHALAAK- 107
Query: 63 PFYWMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLL 122
+L N T+++ ++ + + +++A + + + AL +
Sbjct: 108 -------LLQENDTTLVK--TKELIKNYITARIMAKRPFDK-----KSNSALFRAVGE-- 151
Query: 123 GIIIAIGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDEL--LQKGYGLGS 180
G A + G G Q G +EL L + Y
Sbjct: 152 ------GNAQLVAIFG--G---Q----------------GNTDDYFEELRDLYQTY--HV 182
Query: 181 GISLFI--ATNICENIIWKAFSPTTINS--GRGAEFEG---------------------- 214
+ I + + + +G
Sbjct: 183 LVGDLIKFSAETLSEL---IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP 239
Query: 215 --AVIALFHLLITRNDKVRALREAFYRQNLPNVT----NLLATVLI-------------- 254
VI L H ++T K+ R L T L+ V I
Sbjct: 240 LIGVIQLAHYVVTA--KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 255 -FLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSAL 300
+ V++F G R + +YP TS P IL+ +L
Sbjct: 298 KAITVLFFIG-----------VRCYE-AYPN----TSLPPSILEDSL 328
Score = 36.2 bits (83), Expect = 0.020
Identities = 26/146 (17%), Positives = 46/146 (31%), Gaps = 65/146 (44%)
Query: 22 QSADRKVPFRE-KVIYTVISLFIF-------------LVCSQL--------------PLY 53
QS ++PF E K+ ++ L + L+ L P+Y
Sbjct: 404 QS---RIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVY 460
Query: 54 GIHSTTGAD-------------------PFYWMRVILASNRGT-VMELGITPIVTSG--- 90
+ G+D P W + T +++ G P SG
Sbjct: 461 --DTFDGSDLRVLSGSISERIVDCIIRLPVKWET--TTQFKATHILDFG--PGGASGLGV 514
Query: 91 LVMQLLAGS--KII---EVDNNVRED 111
L + G+ ++I +D N +D
Sbjct: 515 LTHRNKDGTGVRVIVAGTLDINPDDD 540
>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane
protein translocation protein- protein complex,
ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}
Length = 429
Score = 40.2 bits (95), Expect = 7e-04
Identities = 56/303 (18%), Positives = 111/303 (36%), Gaps = 69/303 (22%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL----------ASNRGTVME 80
R+K I+T++ I+ + S +P+ GI+ D + R TV
Sbjct: 15 RQKFIFTLLMFVIYRLGSHIPIPGINPEALRDFLKAFEGSVFALYDIFSGGNLGRLTVFA 74
Query: 81 LGITPIVTSGLVMQLLAGSKIIEVDNNVRED----RALLNGAQKLLGIIIAIGEAVAYVL 136
LG+ P +++ ++MQLL + I + +E+ R +N K L + +A +++
Sbjct: 75 LGVMPYISASIMMQLLTVA-IPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAF 133
Query: 137 -------SGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATN 189
V G+ ++ ++ L + ++ + + + + G+G+G SL I
Sbjct: 134 WIRGQVSPKGIPVVENPGISFILITVLTLVAGTMFLVWIADRITE-KGIGNGASLIIFAG 192
Query: 190 ICENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPNVTNLL 249
I A F AVI + + + LL
Sbjct: 193 IV------------------ANFPNAVIQFYEKV---------------KTGDIGPLTLL 219
Query: 250 ATVLIFLIVIYF-----QGFRVVLPV------RSKNARGQQGSY-PIKLFYTSNMPIILQ 297
+ + + +I + R + P+ + + +Y PIK+ +PII
Sbjct: 220 LIIALIIAIIVGIVYVQEAERRI-PIQYPGRQVGRQLYAGRKTYLPIKINPAGVIPIIFA 278
Query: 298 SAL 300
AL
Sbjct: 279 QAL 281
>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC,
protein-conducting-channel, membrane, prote transport,
translocation, transmembrane, transport; 3.20A {Thermus
thermophilus} PDB: 2zqp_Y
Length = 434
Score = 39.8 bits (94), Expect = 0.001
Identities = 55/301 (18%), Positives = 110/301 (36%), Gaps = 66/301 (21%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL----------ASNRGTVME 80
R++V++T++ L + + + +P G+ + + + R ++
Sbjct: 15 RQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFERFSIFA 74
Query: 81 LGITPIVTSGLVMQLLAGS--KIIEVDNNVREDRALLNGAQKLLGIIIAIGEAVAYV--L 136
LGI P +T+ ++MQ+L + ++ E R ++N ++ GI + +
Sbjct: 75 LGIMPYITAAIIMQILVTVVPALEKLSKEGEEGRRIINQYTRIGGIALGAFQGFFLATAF 134
Query: 137 SGMYGSVNQL-----GVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNIC 191
G G L G +++V +++ + E + + YG+G+G SL I I
Sbjct: 135 LGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITE-YGIGNGTSLIIFAGIV 193
Query: 192 ENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPNVTNLLAT 251
E+ ++ L+ R N+ L
Sbjct: 194 ------------------VEWLPQILRTIGLI---------------RTGEVNLVAFLFF 220
Query: 252 VLIFLIVIYF-----QGFRVVLPV----RSKNAR--GQQGSY-PIKLFYTSNMPIILQSA 299
+ ++ Q R + PV + R G Q +Y PIKL +PII +A
Sbjct: 221 LAFIVLAFAGMAAVQQAERRI-PVQYARKVVGGRVYGGQATYIPIKLNAAGVIPIIFAAA 279
Query: 300 L 300
+
Sbjct: 280 I 280
>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 = 39.1 bits (90), Expect = 0.002
Identities = 32/237 (13%), Positives = 74/237 (31%), Gaps = 66/237 (27%)
Query: 103 EVDNNVREDRALLNGAQKLLGIIIAIGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAG 162
E+D+ + A+ +G +L +++ E + F
Sbjct: 50 EIDHIIMSKDAV-SGTLRLFWTLLSKQEEMVQK------------------------F-- 82
Query: 163 IIVICLDELLQKGYGLGSGISLFIATNICENIIWKAFSPTTINSGRGAEF-EGAVIALFH 221
++E+L+ Y F+ + I + R + + V A ++
Sbjct: 83 -----VEEVLRINYK-------FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 222 LLITRNDKVRALREAFYR-QNLPNV----------TNLLATVLIFLIVIYFQGFRVV-LP 269
++R LR+A + NV T + V + V F++ L
Sbjct: 131 --VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 270 VRSKNARG-----QQ-------GSYPIKLFYTSNMPIILQSALVSNLYFISQLMYRR 314
+++ N+ Q ++ + ++SN+ + + S + Y
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
Score = 36.4 bits (83), Expect = 0.017
Identities = 39/210 (18%), Positives = 59/210 (28%), Gaps = 70/210 (33%)
Query: 75 RGTVMELGITPIVT------SG---LVMQLLAGSKIIEV-DNNV--------REDRALLN 116
R ++EL V SG + + + K+ D + +L
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 117 GAQKLLGIIIAIGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELL-QKG 175
QKLL Y + + S N L I + L LL K
Sbjct: 201 MLQKLL-----------YQIDPNWTS-RSDHSSNIKLRIHSIQAE------LRRLLKSKP 242
Query: 176 YGLGSGISLFIATNICENIIWKAFSPT-TINSGRGAEFEGAVIALFHLLITRN----DKV 230
Y L + N+ W AF+ + I LL TR D +
Sbjct: 243 YE----NCLLVLLNVQNAKAWNAFNLSCKI-----------------LLTTRFKQVTDFL 281
Query: 231 RALREAFYRQNLPNVT-------NLLATVL 253
A + ++T +LL L
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYL 311
>3c0d_A Putative nitrite reductase NADPH (small subunit) oxidoreductase
protein; NESG, VPR162, Q87HB1, XRAY, structure; 2.40A
{Vibrio parahaemolyticus rimd 2210633} SCOP: b.33.1.3
Length = 119
Score = 27.0 bits (60), Expect = 4.5
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 3/29 (10%)
Query: 205 NSGRGAEFEGAVIALFHLLITRNDKVRAL 233
G EG +ALF+ + V A+
Sbjct: 18 FIGATVLIEGERVALFY---IPDSGVYAV 43
>3g89_A Ribosomal RNA small subunit methyltransferase G; 16S rRNA
methyltransferase, translation, cytoplasm, rRNA
processing; HET: HIC SAM AMP; 1.50A {Thermus
thermophilus} PDB: 3g88_A* 3g8a_A* 3g8b_A*
Length = 249
Score = 27.4 bits (61), Expect = 6.0
Identities = 10/46 (21%), Positives = 14/46 (30%), Gaps = 6/46 (13%)
Query: 207 GRGAEFEGAVIAL------FHLLITRNDKVRALREAFYRQNLPNVT 246
G GA F G + + L+ KV + A L
Sbjct: 88 GTGAGFPGLPLKIVRPELELVLVDATRKKVAFVERAIEVLGLKGAR 133
>3ut2_A Catalase-peroxidase 2; KATG, fungal, heme enzyme, oxidoreducta;
HET: TOX HEM; 1.55A {Magnaporthe oryzae 70-15}
Length = 764
Score = 27.8 bits (62), Expect = 6.5
Identities = 9/23 (39%), Positives = 11/23 (47%), Gaps = 3/23 (13%)
Query: 319 FFVNLLG---KWKESEYSGGQYV 338
FFVNL+ W S G +V
Sbjct: 677 FFVNLVDMNIAWTASGADGESWV 699
>3n3r_A Catalase-peroxidase; E198A variant, tuberclosis, isonicotini
hydrazide binding, oxidoreductase; HET: TOX HEM; 1.60A
{Burkholderia pseudomallei} PDB: 3n3s_A* 3n3o_A* 2fxj_A*
3n3p_A* 2fxg_A* 3n3n_A* 2fxh_A* 2dv2_A* 3n3q_A* 2dv1_A*
1x7u_A* 1mwv_A* 2b2o_A* 2b2q_A* 2b2r_A* 2b2s_A*
Length = 748
Score = 27.7 bits (62), Expect = 7.1
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 3/23 (13%)
Query: 319 FFVNLLG---KWKESEYSGGQYV 338
FFVNLL +WK + +
Sbjct: 664 FFVNLLDMGTEWKPTAADADVFE 686
>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease,
exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A
{Thermus thermophilus} PDB: 3bk1_A* 3t3o_A* 3t3n_A*
Length = 562
Score = 27.1 bits (61), Expect = 9.1
Identities = 11/66 (16%), Positives = 27/66 (40%), Gaps = 12/66 (18%)
Query: 68 RVILASNRGTVMELG-----ITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLL 122
+ ++ N G V L V G++ + G + ++ + DR + A++
Sbjct: 427 KTLIGEN-GAVYRLTRETFEKVGEVPHGVLY--VDGLGVGDITEEILADRRHM--AEE-- 479
Query: 123 GIIIAI 128
G+++
Sbjct: 480 GLVVIT 485
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
0.327 0.143 0.423
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,456,417
Number of extensions: 335916
Number of successful extensions: 760
Number of sequences better than 10.0: 1
Number of HSP's gapped: 729
Number of HSP's successfully gapped: 21
Length of query: 352
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 257
Effective length of database: 4,049,298
Effective search space: 1040669586
Effective search space used: 1040669586
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.0 bits)