BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 018378
(357 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q32L22|RPAC1_BOVIN DNA-directed RNA polymerases I and III subunit RPAC1 OS=Bos taurus
GN=POLR1C PE=2 SV=1
Length = 346
Score = 257 bits (656), Expect = 1e-67, Method: Compositional matrix adjust.
Identities = 148/318 (46%), Positives = 199/318 (62%), Gaps = 18/318 (5%)
Query: 32 IEFQRTRVQCNLDAPIHTENVMYSGAYASMGVDNSLQLDHFCNNFRVEVIRLTKDDMEFD 91
+E RTRV + + G Y+ G D++ D F NFRV+V+ + ++ +EFD
Sbjct: 7 VEEMRTRVVLGEFGVRNVHTTDFPGNYS--GYDDAWDQDRFEKNFRVDVVHMDENSLEFD 64
Query: 92 LIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEY 151
++GIDAAIANAFRRIL+AE+PTMA+EKVL+ NNTS++QDE+LAHRLGLIPI DPRLFEY
Sbjct: 65 MVGIDAAIANAFRRILLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPIHADPRLFEY 124
Query: 152 MSENDTSN-EKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPR 210
++ D E +T+ F+L V C R P +++ P E + ++
Sbjct: 125 RNQGDEGGTEIDTLQFRLQVRCTR-NPHAAKDSSD----------PNELYVNHRVYTRHM 173
Query: 211 TYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATA 270
T+ + DL PE + P+ DI IA+L PGQEI+L H VKGIGK HAK+SPVATA
Sbjct: 174 TWVPLGNQADLFPEGAIRPVHD--DILIAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATA 231
Query: 271 WYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLRC 330
YR+LP+I LLE VE E AE+L + V ++++I GKK A VA PR T RE R
Sbjct: 232 SYRLLPDITLLEPVEGEAAEELSRCFSPGVIEVQEI-QGKKVARVANPRLDTFSREVFR- 289
Query: 331 GEEWEKRVSIRRVKDHFI 348
E+ +K V + RV+DHFI
Sbjct: 290 NEKLKKVVRLARVRDHFI 307
>sp|O15160|RPAC1_HUMAN DNA-directed RNA polymerases I and III subunit RPAC1 OS=Homo
sapiens GN=POLR1C PE=1 SV=1
Length = 346
Score = 253 bits (647), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 143/303 (47%), Positives = 196/303 (64%), Gaps = 20/303 (6%)
Query: 47 IHTENVMYSGAYASMGVDNSLQLDHFCNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRI 106
+HT + + G Y+ G D++ D F NFRV+V+ + ++ +EFD++GIDAAIANAFRRI
Sbjct: 24 VHTTD--FPGNYS--GYDDAWDQDRFEKNFRVDVVHMDENSLEFDMVGIDAAIANAFRRI 79
Query: 107 LIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMSEND-TSNEKNTIV 165
L+AE+PTMA+EKVL+ NNTS++QDE+LAHRLGLIPI DPRLFEY ++ D E +T+
Sbjct: 80 LLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPIHADPRLFEYRNQGDEEGTEIDTLQ 139
Query: 166 FKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEF 225
F+L V C R P +++ P E + ++ T+ + DL PE
Sbjct: 140 FRLQVRCTR-NPHAAKDSSD----------PNELYVNHKVYTRHMTWIPLGNQADLFPEG 188
Query: 226 SNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVE 285
+ P+ DI IA+L PGQEI+L H VKGIGK HAK+SPVATA YR+LP+I LLE VE
Sbjct: 189 TIRPVHD--DILIAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDITLLEPVE 246
Query: 286 DEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKD 345
E AE+L + V +++++ GKK A VA PR T RE R E+ +K V + RV+D
Sbjct: 247 GEAAEELSRCFSPGVIEVQEV-QGKKVARVANPRLDTFSREIFR-NEKLKKVVRLARVRD 304
Query: 346 HFI 348
H+I
Sbjct: 305 HYI 307
>sp|P52432|RPAC1_MOUSE DNA-directed RNA polymerases I and III subunit RPAC1 OS=Mus
musculus GN=Polr1c PE=1 SV=3
Length = 346
Score = 253 bits (647), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 147/321 (45%), Positives = 198/321 (61%), Gaps = 24/321 (7%)
Query: 32 IEFQRTRVQCNLDAPIHTENVMYSGAYASMGVDNSLQLDHFCNNFRVEVIRLTKDDMEFD 91
+E RTRV + + G YA G D++ + F NFRV+V+++ +D +EFD
Sbjct: 7 VEEMRTRVVLGEFGVRNVHTTDFPGNYA--GYDDAWDQNRFEKNFRVDVVQMDEDTLEFD 64
Query: 92 LIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEY 151
++GIDAAIANAFRRIL+AE+PTMA+EKVL+ NNTS++QDE+LAHRLGLIPI+ DPRLFEY
Sbjct: 65 MVGIDAAIANAFRRILLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPILADPRLFEY 124
Query: 152 MSEN-DTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNG---SELPLETKPDSNPSS 207
++ + E +T+ F+L V C R PN S P E + +
Sbjct: 125 RNQGEEEGTEIDTLQFRLQVRCTRN--------------PNAAKDSSDPNELYVNHKVYT 170
Query: 208 KPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPV 267
+ T+ + D+ PE + P+ DI IA+L PGQEI+L H VKGIGK HAK+SPV
Sbjct: 171 RHMTWVPLGNQADVFPEGTIRPVHD--DILIAQLRPGQEIDLMMHCVKGIGKDHAKFSPV 228
Query: 268 ATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCREC 327
ATA YR+LP I LLE VE E AE+L + V ++E++ GKK A VA R T RE
Sbjct: 229 ATASYRLLPAITLLEPVEGEAAEELSQCFSPGVIEVEEV-QGKKVARVANARLDTFSREI 287
Query: 328 LRCGEEWEKRVSIRRVKDHFI 348
R E+ +K V + RV+DH+I
Sbjct: 288 FR-HEKLKKAVRLARVRDHYI 307
>sp|Q54SN4|RPAC1_DICDI DNA-directed RNA polymerases I and III subunit rpac1
OS=Dictyostelium discoideum GN=polr1c PE=3 SV=1
Length = 345
Score = 248 bits (633), Expect = 5e-65, Method: Compositional matrix adjust.
Identities = 134/325 (41%), Positives = 193/325 (59%), Gaps = 36/325 (11%)
Query: 30 PHIEFQRTRVQCNLDAPIHTENVMYSGAYASMGVDNSLQLDHFCNNFRVEVIRLTKDDME 89
P++E +RT+V + YSGAY S+G DNS L+ F NF++ ++ + +++
Sbjct: 13 PNLENKRTKVTLTNSGVENARGTYYSGAYTSVGYDNSFNLNRFKENFKINILSESANELV 72
Query: 90 FDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLF 149
F++IGIDA IANA RRI+I+E+PTMAIEKV I NNTS++QDEVLAHRLG+IPI VDPR F
Sbjct: 73 FEMIGIDAPIANALRRIMISEIPTMAIEKVYIINNTSILQDEVLAHRLGMIPIKVDPRKF 132
Query: 150 EYMSENDTSNEKNTIVFKLHVLCERGGP-----RLTVKTNELKWLPNGSELPLETKPDSN 204
+ N ++T++F+L V CE+ T + L W+P +
Sbjct: 133 NFKLPNKEYTAEDTLIFQLKVKCEKDSVTGKIINETALSKHLIWVPTQDQ---------- 182
Query: 205 PSSKPRTYTSFSSSQDLLPEFSNNPIRPML-DITIARLGPGQEIELEAHAVKGIGKTHAK 263
+++ P + P RPM DI I +L PGQ I+++ + K IG+ H K
Sbjct: 183 --------------EEMFPNEEDRP-RPMEDDIPIMKLRPGQVIDIQCYCEKNIGREHIK 227
Query: 264 WSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTL 323
WSPV TA YR+ P I + + ++ + A +L++ CP VFDIED G + A+P CT+
Sbjct: 228 WSPVCTASYRLQPVISVDKSIKGDKANQLLEKCPKKVFDIEDSG----QVVAARPLDCTM 283
Query: 324 CRECLRCGEEWEKRVSIRRVKDHFI 348
CREC+R E+E+ V I RV+DHFI
Sbjct: 284 CRECIR-DPEFEQNVKIERVRDHFI 307
>sp|O94616|RPAC1_SCHPO DNA-directed RNA polymerases I and III subunit RPAC1
OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
GN=rpc40 PE=3 SV=1
Length = 348
Score = 223 bits (569), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 136/336 (40%), Positives = 189/336 (56%), Gaps = 49/336 (14%)
Query: 32 IEFQRTRVQCNLDAPIHTENVMYSGAYASMGVDNSLQLDHFCNNFRVEVIRLTKDDMEFD 91
++ RT + D +V + G Y DN LD F N +V + L ++ M F+
Sbjct: 4 VDRSRTEISVLSDRVTDVGSVDFPGYY--FDEDNIWDLDKFKKNLKVSITSLDQETMVFE 61
Query: 92 LIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEY 151
+ GIDA+IANAFRRILIAE+PT+A E V I NNTS+IQDEVL+HR+GL+PI DP +F++
Sbjct: 62 ISGIDASIANAFRRILIAEIPTLAFEFVYIINNTSIIQDEVLSHRIGLVPISADPDMFKW 121
Query: 152 M-----SENDTSNEKNTIVFKLHVLC---------ERGGPRLTVK----TNELKWLPNGS 193
+ T + +T+VF L+ C E+ RL V + +L W P G
Sbjct: 122 FQHPLPGQEATHTDYDTVVFSLNKKCEFNKNAATDEKDPKRLYVNSEVYSGDLIWKPQGR 181
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPM-LDITIARLGPGQEIELEAH 252
+ F++NPIR + DI +A+L PGQEI+LEAH
Sbjct: 182 Q---------------------------EERFADNPIRVVNPDIVVAKLRPGQEIDLEAH 214
Query: 253 AVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKR 312
A+ GIG+ HAK+SPVATA YR+LP I +L +E EDA K K P V ++E+ GKK+
Sbjct: 215 AILGIGQDHAKFSPVATASYRLLPTIHILSPIEGEDAVKFQKCFPKGVIELEEGPDGKKQ 274
Query: 313 ATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
A VA R T+ RECLR E+ +V + RV+DH++
Sbjct: 275 ARVADVRKDTVSRECLR-HPEFADKVQLGRVRDHYL 309
>sp|P07703|RPAC1_YEAST DNA-directed RNA polymerases I and III subunit RPAC1
OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
GN=RPC40 PE=1 SV=1
Length = 335
Score = 192 bits (489), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 118/296 (39%), Positives = 168/296 (56%), Gaps = 27/296 (9%)
Query: 60 SMGVDNSLQLDHFCNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKV 119
S +N ++ F +F V + L + FDLI ID +IANAFRRI+I+E+P++A E V
Sbjct: 24 SKDAENEWNVEKFKKDFEVNISSLDAREANFDLINIDTSIANAFRRIMISEVPSVAAEYV 83
Query: 120 LIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMSENDTSNEK----NTIVFKLHVLCERG 175
NNTSVIQDEVLAHR+GL+P+ VDP + ++ N +EK NTIV L+V C R
Sbjct: 84 YFFNNTSVIQDEVLAHRIGLVPLKVDPDMLTWVDSNLPDDEKFTDENTIVLSLNVKCTRN 143
Query: 176 --GPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPM 233
P+ + EL + L+ +P S+ F++ P+ P
Sbjct: 144 PDAPKGSTDPKELYNNAHVYARDLKFEPQGRQSTT----------------FADCPVVPA 187
Query: 234 -LDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKL 292
DI +A+L PGQEI L+AH + GIG HAK+SPV+TA YR+LP+I +L+ ++ E A +
Sbjct: 188 DPDILLAKLRPGQEISLKAHCILGIGGDHAKFSPVSTASYRLLPQINILQPIKGESARRF 247
Query: 293 VKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
K P V I++ G A V R T+ RE LR EE+ +V + RV++HFI
Sbjct: 248 QKCFPPGVIGIDE---GSDEAYVKDARKDTVSREVLRY-EEFADKVKLGRVRNHFI 299
>sp|Q54DH7|RPB3_DICDI DNA-directed RNA polymerase II subunit rpb3 OS=Dictyostelium
discoideum GN=polr2c PE=3 SV=1
Length = 302
Score = 135 bits (339), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 145/280 (51%), Gaps = 38/280 (13%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRL 137
+E++ + D + F L D ++ANA RR++IAE+PTM I+ V +N SV+ DE +AHRL
Sbjct: 14 LEILEIKNDSIIFILSNTDISVANALRRVMIAEVPTMCIDLVEFESNNSVLCDEFIAHRL 73
Query: 138 GLIPIIVDP-RLFEYMSENDTSN--EKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSE 194
GLIP++ D F Y + S+ ++ ++ +L+V C PR ++ L N +
Sbjct: 74 GLIPLVSDNIDKFCYTRDCSCSDRCDQCSVELRLNVKCTENRPRDVTSSDLLSQ--NSAV 131
Query: 195 LPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAV 254
+P+ ++ TS +S Q +I I +L GQEI+L A A
Sbjct: 132 IPVSSQ-----------VTSSNSEQ---------------EIPIVKLRRGQEIKLRAIAK 165
Query: 255 KGIGKTHAKWSPVATAWYRMLPEIVL----LEDVEDEDAEKLVKTCPVNVFDIEDIGSGK 310
KG+GK HAKWSP A Y+ P IVL ++++ D+ E+ V +CP V+ S +
Sbjct: 166 KGVGKEHAKWSPSCVATYQFQPIIVLNQNRIDELTDQQKEEWVGSCPTKVYSYSPHQSTQ 225
Query: 311 KRATVAQPRACTLCRECLRCGEEWEK--RVSIRRVKDHFI 348
+ T+ P C C EC + E + K V + + +D FI
Sbjct: 226 Q-VTIEDPLRCVYCLECKKKAESFGKPDLVHLEQKQDKFI 264
>sp|P16925|CNJC_TETTH Conjugation stage-specific protein OS=Tetrahymena thermophila
GN=CNJC PE=2 SV=1
Length = 310
Score = 124 bits (312), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 94/287 (32%), Positives = 144/287 (50%), Gaps = 35/287 (12%)
Query: 78 VEVIRLTKDDME-----FDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEV 132
+E I+LT ++E F L D ++AN+ RRIL+AE+ T+AI V + NTS + DE
Sbjct: 1 MEGIKLTLTNLEEFKCEFTLENCDISLANSLRRILLAEIETIAIHNVKVYENTSSLPDEY 60
Query: 133 LAHRLGLIPI---IVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWL 189
+AHRLGLIP+ VD + + ++ TI F L R++ TNE+ +
Sbjct: 61 IAHRLGLIPLNSAKVDDYNYIWNCNCQGECDRCTIHFDL---------RVSNFTNEVLEV 111
Query: 190 PNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIEL 249
+ L L+ + D R +S +D E+ N + + I I +L GQ+I
Sbjct: 112 ---TSLDLKQRQDHTDEDAVRPIKVYSILRD---EYGN---KREVGIPIIKLSKGQQIHF 162
Query: 250 EAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEK---LVKTCPVNVFDIEDI 306
E A KGIGK H+KW+PV + + + PEI+ +++++ D E+ LV CP VF I
Sbjct: 163 ECEAQKGIGKMHSKWNPVCISTFSVEPEIIFDQEIQNLDIEQKKALVNACPTKVF---GI 219
Query: 307 GSGKKRATVAQPRACTLCRECL-RCGEEWE--KRVSIRRVKDHFICK 350
V C C EC+ +C E+++ K + I KD F K
Sbjct: 220 NPHTNTLEVQDHMKCMYCEECVYKCAEDFQKPKLIKIDHKKDKFFFK 266
>sp|Q2NFZ6|RPOD_METST DNA-directed RNA polymerase subunit D OS=Methanosphaera stadtmanae
(strain DSM 3091) GN=rpoD PE=3 SV=1
Length = 270
Score = 115 bits (288), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 87/266 (32%), Positives = 121/266 (45%), Gaps = 50/266 (18%)
Query: 90 FDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLF 149
F + G+D N RRI + E+PT+AIE V I N + + DEVLAHRLGLIPI+ D +
Sbjct: 15 FVVEGVDDTFINTIRRICLVEIPTLAIEDVNIYKNDAKMFDEVLAHRLGLIPIVTDLDSY 74
Query: 150 EYMSENDTSN--EKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSS 207
SE D + + + F L CE G V + +LK
Sbjct: 75 VMPSECDCESGCQHCRVSFLLKEKCEEGNDSKIVYSKDLK-------------------- 114
Query: 208 KPRTYTSFSSSQDLLPEFSNNP-IRPMLD-ITIARLGPGQEIELEAHAVKGIGKTHAKWS 265
S++P ++P+ D I I RL G+E+ELEA A G+G HAKW
Sbjct: 115 ------------------SDDPAVKPVYDTIPIVRLREGEEVELEAIAELGLGSEHAKWQ 156
Query: 266 PVATAWYRMLPEIVLLEDVED-EDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLC 324
T Y+ P+I + D E D E+ V+ CP NV IED V C+ C
Sbjct: 157 ATTTCGYKYYPKIEI--DTEKVNDLEEYVEECPRNVLQIED-----DTLVVGNIENCSTC 209
Query: 325 RECLRCGEEWEKRVSIRRVKDHFICK 350
R C R E+ + + + + +I K
Sbjct: 210 RTCQRLSEKDDNAIVVDFEESKYIFK 235
>sp|Q39211|RPB3A_ARATH DNA-directed RNA polymerase II subunit RPB3-A OS=Arabidopsis
thaliana GN=RPB36A PE=2 SV=1
Length = 319
Score = 115 bits (287), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 90/267 (33%), Positives = 134/267 (50%), Gaps = 38/267 (14%)
Query: 81 IRLTKDDM-EFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGL 139
IR KDD +F+L D ++ANA RR++I+E+PT+AI+ V I N+SV+ DE +AHRLGL
Sbjct: 14 IRELKDDYAKFELRETDVSMANALRRVMISEVPTVAIDLVEIEVNSSVLNDEFIAHRLGL 73
Query: 140 IPIIVDPRLFEYMS------ENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
IP+ + + S + D E ++ F+L C L V + +L
Sbjct: 74 IPLTSERAMSMRFSRDCDACDGDGQCEFCSVEFRLSSKCVT-DQTLDVTSRDLY------ 126
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHA 253
++P+ P +T SS D I I +L GQE++L A A
Sbjct: 127 --------SADPTVTPVDFTIDSSVSDSSEHKG---------IIIVKLRRGQELKLRAIA 169
Query: 254 VKGIGKTHAKWSPVATAWYRMLPEIVLLEDVED--EDAEK--LVKTCPVNVFDIEDIGSG 309
KGIGK HAKWSP AT + P+I++ ED+ D D EK L+++ P VF ++ +
Sbjct: 170 RKGIGKDHAKWSPAATVTFMYEPDIIINEDMMDTLSDEEKIDLIESSPTKVFGMDPV--- 226
Query: 310 KKRATVAQPRACTLCRECLRCGEEWEK 336
++ V P A T E ++ E K
Sbjct: 227 TRQVVVVDPEAYTYDEEVIKKAEAMGK 253
>sp|P19387|RPB3_HUMAN DNA-directed RNA polymerase II subunit RPB3 OS=Homo sapiens
GN=POLR2C PE=1 SV=2
Length = 275
Score = 104 bits (260), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 70/213 (32%), Positives = 104/213 (48%), Gaps = 27/213 (12%)
Query: 72 FCNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDE 131
+ N V + LT ++++F + D A+AN+ RR+ IAE+P +AI+ V I N+SV+ DE
Sbjct: 3 YANQPTVRITELTDENVKFIIENTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHDE 62
Query: 132 VLAHRLGLIPIIVDPRLFEYMSENDTSNEKN----TIVFKLHVLCERGGPRLTVKTNELK 187
+AHRLGLIP+I D + + D + E+ ++ F L V C R + +
Sbjct: 63 FIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI- 121
Query: 188 WLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEI 247
S+ PR S ++D P N DI I +L GQE+
Sbjct: 122 ------------------SNSPRVIPVTSRNRDNDP----NDYVEQDDILIVKLRKGQEL 159
Query: 248 ELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVL 280
L A+A KG GK HAKW+P A + P+ L
Sbjct: 160 RLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNAL 192
>sp|Q39212|RPB3B_ARATH DNA-directed RNA polymerase II subunit RPB3-B OS=Arabidopsis
thaliana GN=RPB36B PE=1 SV=2
Length = 319
Score = 104 bits (260), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 86/267 (32%), Positives = 128/267 (47%), Gaps = 38/267 (14%)
Query: 81 IRLTKDDM-EFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGL 139
IR KDD +F+L D ++ANA RR++I+E+PTMAI V I N+SV+ DE +A RL L
Sbjct: 14 IRELKDDYAKFELRETDVSMANALRRVMISEVPTMAIHLVKIEVNSSVLNDEFIAQRLSL 73
Query: 140 IPIIVDPRLFEYMSEN------DTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
IP+ + + ++ D E ++ F L C L V + +L
Sbjct: 74 IPLTSERAMSMRFCQDCEDCNGDEHCEFCSVEFPLSAKC-VTDQTLDVTSRDLY------ 126
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHA 253
++P+ P D S + I IA+L GQE++L+A A
Sbjct: 127 --------SADPTVTP---------VDFTSNSSTSDSSEHKGIIIAKLRRGQELKLKALA 169
Query: 254 VKGIGKTHAKWSPVATAWYRMLPEIVLLED----VEDEDAEKLVKTCPVNVFDIEDIGSG 309
KGIGK HAKWSP AT Y P+I++ E+ + DE+ L+++ P VF I+ +
Sbjct: 170 RKGIGKDHAKWSPAATVTYMYEPDIIINEEMMNTLTDEEKIDLIESSPTKVFGIDPVTG- 228
Query: 310 KKRATVAQPRACTLCRECLRCGEEWEK 336
+ V P A T E ++ E K
Sbjct: 229 --QVVVVDPEAYTYDEEVIKKAEAMGK 253
>sp|Q3T0Q3|RPB3_BOVIN DNA-directed RNA polymerase II subunit RPB3 OS=Bos taurus GN=POLR2C
PE=2 SV=1
Length = 275
Score = 103 bits (256), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 69/213 (32%), Positives = 103/213 (48%), Gaps = 27/213 (12%)
Query: 72 FCNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDE 131
+ N V + LT ++++F + D A+AN+ RR+ IAE+P +AI+ V I N+SV+ DE
Sbjct: 3 YANQPTVRITELTDENVKFIIENTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHDE 62
Query: 132 VLAHRLGLIPIIVDPRLFEYMSENDTSNEKN----TIVFKLHVLCERGGPRLTVKTNELK 187
+AHRLGLIP+ D + + D + E+ ++ F L V C R + +
Sbjct: 63 FIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI- 121
Query: 188 WLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEI 247
S+ PR S ++D P N DI I +L GQE+
Sbjct: 122 ------------------SNSPRVIPVTSRNRDNDP----NDYVEQDDILIVKLRKGQEL 159
Query: 248 ELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVL 280
L A+A KG GK HAKW+P A + P+ L
Sbjct: 160 RLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNAL 192
>sp|O26144|RPOD_METTH DNA-directed RNA polymerase subunit D OS=Methanothermobacter
thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM
10044 / NBRC 100330 / Delta H) GN=rpoD PE=3 SV=1
Length = 264
Score = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 72/247 (29%), Positives = 108/247 (43%), Gaps = 45/247 (18%)
Query: 84 TKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPII 143
T +M F + G+ NA RRI + E+P +AIE V + N + + DEVLAHRLGL+P+
Sbjct: 9 TDTEMVFVVSGVTVPFINAIRRICMMEVPKLAIEYVNMYRNDAKMFDEVLAHRLGLVPLA 68
Query: 144 VDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDS 203
DP E + + + CE +V K P
Sbjct: 69 ADPEFAESLKMPEECD------------CEEYCSECSVSLTLRKKGPG------------ 104
Query: 204 NPSSKPRTYTSFSSSQDLLPEF-SNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHA 262
S DL+ E + P+ P DI + +LG E+ELEA A G+G+ HA
Sbjct: 105 -----------VVYSGDLVSETPAVKPVYP--DIPLVKLGDDDELELEAVAQLGVGREHA 151
Query: 263 KWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACT 322
KW P Y+ P I ED ++ + ++ CP +V +G + V C+
Sbjct: 152 KWEPTTACAYKYYPRIEFSEDC--DECLECIEACPRDV-----LGEESGKPVVVDLENCS 204
Query: 323 LCRECLR 329
+C+ C+R
Sbjct: 205 MCKSCVR 211
>sp|P97760|RPB3_MOUSE DNA-directed RNA polymerase II subunit RPB3 OS=Mus musculus
GN=Polr2c PE=2 SV=1
Length = 275
Score = 97.4 bits (241), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 66/210 (31%), Positives = 101/210 (48%), Gaps = 27/210 (12%)
Query: 72 FCNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDE 131
+ N V + LT+++++F + D A+AN+ RR+ IAE+P +AI+ V I N+SV+ DE
Sbjct: 3 YANQPTVRITELTEENVKFIIENTDLAVANSIRRVFIAEVPIIAIDWVQIDGNSSVLHDE 62
Query: 132 VLAHRLGLIPIIVDPRLFEYMSENDTSNE----KNTIVFKLHVLCERGGPRLTVKTNELK 187
+AHRLGLIP+ D + + D + E + ++ F L V C R + +
Sbjct: 63 FIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI- 121
Query: 188 WLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEI 247
S+ PR S ++D P N DI I +L GQE+
Sbjct: 122 ------------------SNSPRVIPVTSRNRDNDP----NDYVEQDDILIVKLRKGQEL 159
Query: 248 ELEAHAVKGIGKTHAKWSPVATAWYRMLPE 277
L A+ K GK HAKW+P A + P+
Sbjct: 160 RLRAYVKKRSGKEHAKWNPTAGVAFEYDPD 189
>sp|O28002|RPOD_ARCFU DNA-directed RNA polymerase subunit D OS=Archaeoglobus fulgidus
(strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC
100126) GN=rpoD PE=3 SV=1
Length = 264
Score = 94.4 bits (233), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 72/258 (27%), Positives = 115/258 (44%), Gaps = 51/258 (19%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRL 137
+E++ ++F L A+AN+FRR + AE+P MA++ V I N+S DEV+AHRL
Sbjct: 5 IEILEEKDFKIKFILKNASPALANSFRRAMKAEVPAMAVDYVDIYLNSSYFYDEVIAHRL 64
Query: 138 GLIPIIVDPRLFEYMSENDTSNE---KNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSE 194
++PI F SE E I F+L+V GP++ + +
Sbjct: 65 AMLPIKTYLDRFNMQSECSCGGEGCPNCQISFRLNV----EGPKVVYSGDFI-------- 112
Query: 195 LPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAV 254
S D++ N P+ + + GQ++ LEA A
Sbjct: 113 ---------------------SDDPDVVFAIDNIPVLELFE--------GQQLMLEAVAR 143
Query: 255 KGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRAT 314
G G+ HAK+ PV+ Y+++PEIV+ E+ ++ CP NVF+ +
Sbjct: 144 LGTGREHAKFQPVSVCVYKIIPEIVVNENC--NGCGDCIEACPRNVFE-----KDGDKVR 196
Query: 315 VAQPRACTLCRECLRCGE 332
V AC++C EC+ E
Sbjct: 197 VKNVMACSMCGECVEVCE 214
>sp|P95989|RPOD_SULSO DNA-directed RNA polymerase subunit D OS=Sulfolobus solfataricus
(strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) GN=rpoD
PE=1 SV=1
Length = 265
Score = 94.0 bits (232), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 86/270 (31%), Positives = 121/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P MA++ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + + L Y E +N CE+ ++ ++ PN
Sbjct: 66 PFMSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEA----PN-------- 104
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
+PR Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 105 --------EPRMIYSKDIKSED--P--SVVPISG--DIPIVLLGTNQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ + R P++ +L + EK V CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLSVVRYYPKVEIL-----ANCEKAVNVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
+CTLC ECLR + I V+D +I
Sbjct: 201 LSCTLCEECLR---YCNGSIRISFVEDKYI 227
>sp|C3MZ05|RPOD_SULIM DNA-directed RNA polymerase subunit D OS=Sulfolobus islandicus
(strain M.14.25 / Kamchatka #1) GN=rpoD PE=3 SV=1
Length = 265
Score = 92.8 bits (229), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 84/270 (31%), Positives = 119/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + L Y E +N CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEAL------------- 103
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
++P+ Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 104 -------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ A R P++ +L + EK CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLAIVRYYPKVEIL-----GNCEKAATVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC ECLR + I ++D +I
Sbjct: 201 LACTLCEECLR---YCNGLIRISSIEDKYI 227
>sp|C4KJ93|RPOD_SULIK DNA-directed RNA polymerase subunit D OS=Sulfolobus islandicus
(strain M.16.4 / Kamchatka #3) GN=rpoD PE=3 SV=1
Length = 265
Score = 92.8 bits (229), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 84/270 (31%), Positives = 119/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + L Y E +N CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEAL------------- 103
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
++P+ Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 104 -------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ A R P++ +L + EK CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLAIVRYYPKVEIL-----GNCEKAATVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC ECLR + I ++D +I
Sbjct: 201 LACTLCEECLR---YCNGLIRISSIEDKYI 227
>sp|C3N054|RPOD_SULIA DNA-directed RNA polymerase subunit D OS=Sulfolobus islandicus
(strain M.16.27) GN=rpoD PE=3 SV=1
Length = 265
Score = 92.8 bits (229), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 84/270 (31%), Positives = 119/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + L Y E +N CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEAL------------- 103
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
++P+ Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 104 -------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ A R P++ +L + EK CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLAIVRYYPKVEIL-----GNCEKAATVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC ECLR + I ++D +I
Sbjct: 201 LACTLCEECLR---YCNGLIRISSIEDKYI 227
>sp|C3N8R8|RPOD_SULIY DNA-directed RNA polymerase subunit D OS=Sulfolobus islandicus
(strain Y.G.57.14 / Yellowstone #1) GN=rpoD PE=3 SV=1
Length = 265
Score = 92.8 bits (229), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 84/270 (31%), Positives = 119/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRATMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + L Y E +N CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEAL------------- 103
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
++P+ Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 104 -------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ A R P++ +L + EK CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLAIVRYYPKVEIL-----GNCEKAATVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC ECLR + I ++D +I
Sbjct: 201 LACTLCEECLR---YCNGLIRISSIEDKYI 227
>sp|C3NMQ0|RPOD_SULIN DNA-directed RNA polymerase subunit D OS=Sulfolobus islandicus
(strain Y.N.15.51 / Yellowstone #2) GN=rpoD PE=3 SV=1
Length = 265
Score = 92.8 bits (229), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 84/270 (31%), Positives = 119/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRATMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + L Y E +N CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEAL------------- 103
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
++P+ Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 104 -------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ A R P++ +L + EK CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLAIVRYYPKVEIL-----GNCEKAATVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC ECLR + I ++D +I
Sbjct: 201 LACTLCEECLR---YCNGLIRISSIEDKYI 227
>sp|C3MJP7|RPOD_SULIL DNA-directed RNA polymerase subunit D OS=Sulfolobus islandicus
(strain L.S.2.15 / Lassen #1) GN=rpoD PE=3 SV=1
Length = 265
Score = 92.8 bits (229), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 84/270 (31%), Positives = 119/270 (44%), Gaps = 52/270 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRATMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + L Y E +N CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEAL------------- 103
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
++P+ Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 104 -------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ A R P++ +L + EK CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLAIVRYYPKVEIL-----GNCEKAATVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC ECLR + I ++D +I
Sbjct: 201 LACTLCEECLR---YCNGLIRISSIEDKYI 227
>sp|A5UN55|RPOD_METS3 DNA-directed RNA polymerase subunit D OS=Methanobrevibacter smithii
(strain PS / ATCC 35061 / DSM 861) GN=rpoD PE=3 SV=1
Length = 274
Score = 91.7 bits (226), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 71/257 (27%), Positives = 112/257 (43%), Gaps = 50/257 (19%)
Query: 76 FRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAH 135
+EV T D++ F + + NA RR + +P +AIE V I N S + +EVLAH
Sbjct: 1 MEIEVKSQTDDEIVFIVRDAEVPFINAIRRCAMVNVPKIAIEDVNIMRNDSAMFNEVLAH 60
Query: 136 RLGLIPIIVDPRLFEYMS--ENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
RLGL P++ + E + +D E N+++F L + GP++
Sbjct: 61 RLGLTPLVSNMDAIEGLPLPGDDDYEENNSVMFSL----KEEGPKVVY------------ 104
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLD-ITIARLGPGQEIELEAH 252
S+DL+ S++ I+P+ D I + +L G+++ +EA
Sbjct: 105 ------------------------SKDLIS--SDSKIKPVYDTIPLVKLKEGEKLNIEAV 138
Query: 253 AVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKR 312
A G GK HAKW P Y+ PEI EDV + + CP V + K
Sbjct: 139 AKVGYGKEHAKWMPTTVCVYKQYPEITFNEDVGID--YECADACPRGVLKSD---KRSKE 193
Query: 313 ATVAQPRACTLCRECLR 329
+ C +C+ C+R
Sbjct: 194 IKILDIEDCAMCKSCVR 210
>sp|P16370|RPB3_YEAST DNA-directed RNA polymerase II subunit RPB3 OS=Saccharomyces
cerevisiae (strain ATCC 204508 / S288c) GN=RPB3 PE=1
SV=2
Length = 318
Score = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 102/206 (49%), Gaps = 36/206 (17%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+V++ +KD+++F L +D A+AN+ RR++IAE+PT+AI+ V + NT+V+ DE +AHR
Sbjct: 7 QVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHR 66
Query: 137 LGLIPI-IVDPRLFEYMSE--NDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
LGLIP+ +D EY + + +K ++V L
Sbjct: 67 LGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFG--------------------- 105
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPI---RPMLDITIARLGPGQEIELE 250
E++ +N SK S +L+ +PI + + I +L GQE++L
Sbjct: 106 ----ESESTTNVYSKDLVIVS-----NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLT 156
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLP 276
A KGI K HAKW P A + P
Sbjct: 157 CVAKKGIAKEHAKWGPAAAIEFEYDP 182
>sp|Q57648|RPOD_METJA DNA-directed RNA polymerase subunit D OS=Methanocaldococcus
jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM
10045 / NBRC 100440) GN=rpoD PE=1 SV=1
Length = 191
Score = 87.4 bits (215), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 61/177 (34%), Positives = 81/177 (45%), Gaps = 54/177 (30%)
Query: 98 AIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMSENDT 157
+ +NA RRI+I+E+PT AIE V I N+S + DE+LAHRLGLIPI P L
Sbjct: 25 SFSNAIRRIMISEVPTFAIEDVYIYENSSSMDDEILAHRLGLIPIKGKPLL--------- 75
Query: 158 SNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSS 217
E I F L E+ GP TV +++LK
Sbjct: 76 --ENEVITFTL----EKEGP-CTVYSSDLK------------------------------ 98
Query: 218 SQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRM 274
S N +I I +LG GQ I++E A+ GIGK HAKW P + ++
Sbjct: 99 --------SENGEVAFKNIPIVKLGKGQRIQIECEAIPGIGKVHAKWQPCNAVYKQI 147
>sp|Q8TVB8|RPOD_METKA DNA-directed RNA polymerase subunit D OS=Methanopyrus kandleri
(strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
GN=rpoD PE=3 SV=1
Length = 275
Score = 86.7 bits (213), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 73/234 (31%), Positives = 106/234 (45%), Gaps = 44/234 (18%)
Query: 76 FRVEVIRLTKDDME---FDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEV 132
RV + K D+E F + A N RR L +PT+ IE+V+I N + + DE+
Sbjct: 4 LRVRLYDYRKADVERATFIIEETSAEFVNTIRRALYTLVPTLRIEEVIIYENDTPMYDEM 63
Query: 133 LAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNG 192
LAHRLGLIP+ VD + F+L LC+ GG G
Sbjct: 64 LAHRLGLIPLRVD----------------DIDQFELPDLCDCGG--------------KG 93
Query: 193 SELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPML-DITIARLGPGQEIELEA 251
E + + + + Y ++DL +F + + P D I +G Q I LE
Sbjct: 94 CE-KCQVRAELEVEGPTKVY-----ARDL--KFDHPDVEPAFPDTLITEVGEDQRIRLEV 145
Query: 252 HAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIED 305
AV G+G HAKW PV+ Y+ LPE+ + ED E +K+ CP + IE+
Sbjct: 146 IAVPGLGLEHAKWKPVSAVGYKGLPELEIDEDKLKE--KKITYECPQGIIRIEN 197
>sp|P39471|RPOD_SULAC DNA-directed RNA polymerase subunit D OS=Sulfolobus acidocaldarius
(strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 /
NCIMB 11770) GN=rpoD PE=3 SV=2
Length = 264
Score = 86.3 bits (212), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 72/253 (28%), Positives = 110/253 (43%), Gaps = 54/253 (21%)
Query: 100 ANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMSENDTSN 159
N+ RR I +P MA+++V N S + DE+LAHRL L+P + D L Y + +
Sbjct: 25 VNSIRRASILYVPVMAVDEVYFIENNSPLYDEILAHRLALVPFVSDEALEHYRPPEECAE 84
Query: 160 EK---NTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFS 216
K + ++++ E L + + +LK S+ + T S
Sbjct: 85 CKENCDGCYNRVYLDVEAKDQPLMIYSRDLK-------------------SEDQMITPVS 125
Query: 217 SSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLP 276
+ I I LG Q+I LEA G GK H K+SPV+ + R P
Sbjct: 126 GA-----------------IPIVLLGSKQKISLEARLRLGYGKEHIKYSPVSVSIVRYYP 168
Query: 277 EIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLR-CGEEWE 335
++ +L + EK V+ CP VF +E+ + V +C LC ECL+ C
Sbjct: 169 KVTVL-----GNCEKAVEVCPEGVFAMEN-----NKLVVKNELSCILCEECLKYCA---- 214
Query: 336 KRVSIRRVKDHFI 348
VSI V++ FI
Sbjct: 215 GSVSIESVENKFI 227
>sp|P0CG28|RPOD_METAC DNA-directed RNA polymerase subunit D OS=Methanosarcina acetivorans
(strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A) GN=rpoD
PE=3 SV=1
Length = 266
Score = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 68/254 (26%), Positives = 109/254 (42%), Gaps = 45/254 (17%)
Query: 75 NFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLA 134
V+++ L+ +F L + A AN RR ++A++PT+AIE V + +NTSV+ DE LA
Sbjct: 2 TMEVDILELSDRSAKFVLSNVSTAFANGIRRAMVADVPTLAIEYVNLYDNTSVLYDEQLA 61
Query: 135 HRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSE 194
RL LIP+ D + +E D + ++ + GP TV + +L
Sbjct: 62 LRLSLIPLATDIETYLPQAECDVCGGEGCPACEVSLTLSAEGPG-TVYSRDLI------- 113
Query: 195 LPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAV 254
SS P+ P P ++ I L GQ++ LEA A
Sbjct: 114 -----------SSDPKI----------------QPADP--NVPIVELKKGQKLVLEAIAH 144
Query: 255 KGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDA-EKLVKTCPVNVFDIEDIGSGKKRA 313
G G+ KW Y+ +P I +E+ DA CP + +E+ G+
Sbjct: 145 MGYGRDSVKWQAGVACGYKNMPVIT----IENCDACGHCAAECPKGIISVEEAGAKIAEE 200
Query: 314 TVAQPRACTLCREC 327
+ + C++CR C
Sbjct: 201 DIMK---CSICRLC 211
>sp|Q96YW0|RPOD_SULTO DNA-directed RNA polymerase subunit D OS=Sulfolobus tokodaii
(strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) GN=rpoD
PE=3 SV=1
Length = 264
Score = 83.6 bits (205), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 78/271 (28%), Positives = 116/271 (42%), Gaps = 53/271 (19%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L+K++ LI + N+ RR I +P MA+++V N S + DE+LAHRL +I
Sbjct: 6 LSKENNSLKLIVGNYPLELVNSIRRASILYVPVMAVDEVYFIENNSPLYDEILAHRLAMI 65
Query: 141 PIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPR--LTVKTNELKWLPNGSELPLE 198
P D L Y + + K C+ R L V NE +
Sbjct: 66 PFSSDEALDHYRPPEECAECKEN--------CDGCYARVYLDVGANEGE----------- 106
Query: 199 TKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPML-DITIARLGPGQEIELEAHAVKGI 257
T S+DL + + I P+ +I I LGP Q++ LEA G
Sbjct: 107 --------------TVMVYSRDL--KTDDPAIVPISGNIPIVLLGPKQKVTLEARLRLGY 150
Query: 258 GKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQ 317
GK H K+SPV+ A R P + + + EK + CP VF +E+ + V
Sbjct: 151 GKEHIKFSPVSIAVVRYYPHVEV-----KGNCEKAFEVCPEGVFGMEN-----GKLFVKN 200
Query: 318 PRACTLCRECLRCGEEWEKRVSIRRVKDHFI 348
ACTLC EC++ E + I V++ +I
Sbjct: 201 EVACTLCEECIK---YCENNIFISAVENKYI 228
>sp|A1RSE3|RPOD_PYRIL DNA-directed RNA polymerase subunit D OS=Pyrobaculum islandicum
(strain DSM 4184 / JCM 9189) GN=rpoD PE=3 SV=1
Length = 262
Score = 82.4 bits (202), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 64/203 (31%), Positives = 94/203 (46%), Gaps = 41/203 (20%)
Query: 94 GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMS 153
G ++ N+ RR++I+ELP MAI+ V+I +NTSV+ DE+LAHRLGL+P+ + +
Sbjct: 20 GAYPSLVNSIRRVIISELPVMAIDYVVIVSNTSVMYDEMLAHRLGLVPLTTPLQALPPIE 79
Query: 154 ENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYT 213
+ CE G L + SE + N S Y+
Sbjct: 80 D-----------------CETG-------------LVDPSECTVRLMLQINAESDKIVYS 109
Query: 214 S--FSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAW 271
S D++P + DI I +L GQ I LEA+A G K HAKW A A
Sbjct: 110 GDLVSERPDVVPVYK--------DIPIVKLVKGQSIILEAYAKLGRAKEHAKWQ-AALAS 160
Query: 272 YRMLPEIVLLEDVEDEDAEKLVK 294
Y P I +L++ E+ + + K
Sbjct: 161 YYYYPRIKVLDEKCKEECKDICK 183
>sp|Q8PV16|RPOD_METMA DNA-directed RNA polymerase subunit D OS=Methanosarcina mazei
(strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833
/ OCM 88) GN=rpoD PE=3 SV=1
Length = 266
Score = 82.0 bits (201), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 71/254 (27%), Positives = 109/254 (42%), Gaps = 45/254 (17%)
Query: 75 NFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLA 134
V+++ L+ +F L + A AN RR +IA++PT+AIE V + +NTSV+ DE LA
Sbjct: 2 TMEVDILELSDRSAKFVLSRVSMAFANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQLA 61
Query: 135 HRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSE 194
RL LIP++ D + +E + + ++ + GP TV + +L
Sbjct: 62 LRLSLIPLVTDIETYMPQAECEVCGGEGCPACEVSLTLSAEGPG-TVYSRDLI------- 113
Query: 195 LPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAV 254
SS P+ P P +I I L GQ++ LEA A
Sbjct: 114 -----------SSDPKI----------------QPADP--NIPIVELKKGQKLVLEAIAH 144
Query: 255 KGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDA-EKLVKTCPVNVFDIEDIGSGKKRA 313
G G+ KW Y+ +P I +E+ DA CP + +E+ G+ R
Sbjct: 145 MGYGRDSVKWQAGVACGYKNVPVIT----IENCDACGHCAAECPKGIIRVEEAGA---RI 197
Query: 314 TVAQPRACTLCREC 327
C+LCR C
Sbjct: 198 AEDDLIKCSLCRLC 211
>sp|B1YC30|RPOD_PYRNV DNA-directed RNA polymerase subunit D OS=Pyrobaculum neutrophilum
(strain DSM 2338 / JCM 9278 / V24Sta) GN=rpoD PE=3 SV=1
Length = 262
Score = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 56/182 (30%), Positives = 85/182 (46%), Gaps = 42/182 (23%)
Query: 94 GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMS 153
G ++ N+ RR++I+ELP MAI+ V++ NNTSV+ DE+LAHRLGLIP+ + +
Sbjct: 20 GAYPSLVNSLRRVIISELPVMAIDTVIVVNNTSVMYDEMLAHRLGLIPLTTPLQSLPPIE 79
Query: 154 ENDTS---NEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPR 210
+ ++ + T+ F L V +TV + +L + +PD P K
Sbjct: 80 DCESGLADPSECTVRFTLQV---NADGEVTVYSGDL----------VSERPDVVPVHK-- 124
Query: 211 TYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATA 270
DI I +L GQ I LEA+A G + HAKW +
Sbjct: 125 ------------------------DIPIVKLVKGQSIVLEAYAKLGRARGHAKWQAALAS 160
Query: 271 WY 272
+Y
Sbjct: 161 YY 162
>sp|Q9V198|RPOD_PYRAB DNA-directed RNA polymerase subunit D OS=Pyrococcus abyssi (strain
GE5 / Orsay) GN=rpoD PE=3 SV=1
Length = 259
Score = 80.1 bits (196), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 66/218 (30%), Positives = 100/218 (45%), Gaps = 46/218 (21%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRL 137
+++++ T D + F L G+D A ANA RR ++ E+PT A+++V N S + DE++AHRL
Sbjct: 4 IKILKKTDDSITFILEGVDVAFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHRL 63
Query: 138 GLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPL 197
+IP+ FE + + T+ L E GP + V + +LK
Sbjct: 64 AMIPLKTPVDRFEL---DALELDDYTVTLSL----EAEGPGI-VYSGDLK---------- 105
Query: 198 ETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGI 257
PD P+ NP DI I +L GQ + A A G
Sbjct: 106 SDDPDVKPA---------------------NP-----DIPIVKLAKGQRLVFNAFAKLGR 139
Query: 258 GKTHAKWSPVATAWYRMLPEIVLLEDVED-EDAEKLVK 294
GK HAKW P T +Y+ I + +++E E +KL K
Sbjct: 140 GKDHAKWQPGFT-YYKYFTRIHISKEIEGWEKLKKLAK 176
>sp|P37382|RPB3_SCHPO DNA-directed RNA polymerase II subunit RPB3 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) GN=rpb3 PE=1 SV=2
Length = 297
Score = 77.8 bits (190), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 98/206 (47%), Gaps = 34/206 (16%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+ + ++K+ ++F L A+AN+ RR+++AE+PT+AI+ V I NTSV+ DE LAHR
Sbjct: 6 HITIRNISKNSVDFVLTNTSLAVANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHR 65
Query: 137 LGLIPIIVDPRLFEYMSENDTSNEKN----TIVFKLHVLCERGGPRLTVKTNELKWLPNG 192
LG+IP+ D+SN + + + C++ P+ +V
Sbjct: 66 LGMIPL-------------DSSNIDEPPPVGLEYTRNCDCDQYCPKCSV----------- 101
Query: 193 SELPLETKPDSNPSSK--PRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELE 250
EL L K + + R S+S P ++ R L I +L QEI L
Sbjct: 102 -ELFLNAKCTGEGTMEIYARDLVVSSNSSLGHPILADPKSRGPL---ICKLRKEQEISLR 157
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLP 276
A KGI K HAKWSP + + P
Sbjct: 158 CIAKKGIAKEHAKWSPTSAVAFEYDP 183
>sp|Q5JJF4|RPOD_PYRKO DNA-directed RNA polymerase subunit D OS=Pyrococcus kodakaraensis
(strain ATCC BAA-918 / JCM 12380 / KOD1) GN=rpoD PE=3
SV=1
Length = 259
Score = 77.4 bits (189), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/201 (30%), Positives = 93/201 (46%), Gaps = 45/201 (22%)
Query: 86 DDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVD 145
D ++F + G+D ANA RR +++E+PT A+++V N S + DE++AHRL +IP+
Sbjct: 12 DSIKFIVSGVDVPFANALRRTILSEVPTFAVDEVEFLENDSALFDEIIAHRLAMIPLTTP 71
Query: 146 PRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNP 205
E S + + T+ L E GP + V + +LK
Sbjct: 72 ---HERFSLDALELDDYTVTLSL----EAEGPGM-VYSGDLK------------------ 105
Query: 206 SSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWS 265
SS D+ P NP +I I +L GQ + A+A G GK HAKW
Sbjct: 106 ----------SSDGDVKP---ANP-----NIPIVKLAEGQRLTFNAYARLGRGKDHAKWQ 147
Query: 266 PVATAWYRMLPEIVLLEDVED 286
P +Y+ L +I + +DV D
Sbjct: 148 P-GFVYYKYLTKIHVSKDVPD 167
>sp|O59303|RPOD_PYRHO DNA-directed RNA polymerase subunit D OS=Pyrococcus horikoshii
(strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139
/ OT-3) GN=rpoD PE=3 SV=2
Length = 259
Score = 77.0 bits (188), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 57/195 (29%), Positives = 88/195 (45%), Gaps = 44/195 (22%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
++++++ T+D + F L G+ A ANA RR ++ E+PT A+++V N S + DE++AHR
Sbjct: 3 KIKILKKTEDSITFILEGVSVAFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHR 62
Query: 137 LGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELP 196
L +IP+ FE + + T+ L E GP + V + +LK
Sbjct: 63 LAMIPLKTPTDRFEL---DALELDDYTVTLSL----EAEGPGI-VYSGDLK--------- 105
Query: 197 LETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKG 256
+P KP T DI I +L GQ + A+A G
Sbjct: 106 -----SDDPDVKPVT----------------------PDIPIVKLAKGQRLVFNAYAKLG 138
Query: 257 IGKTHAKWSPVATAW 271
GK HAKW P T +
Sbjct: 139 RGKDHAKWQPGFTYY 153
>sp|A4WNA4|RPOD_PYRAR DNA-directed RNA polymerase subunit D OS=Pyrobaculum arsenaticum
(strain DSM 13514 / JCM 11321) GN=rpoD PE=3 SV=1
Length = 259
Score = 75.5 bits (184), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 79/268 (29%), Positives = 119/268 (44%), Gaps = 65/268 (24%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
RV ++ ++ ++ + G+ ++ N+ RR++I+ELP MAI+ V++ NNTSV+ DE LA R
Sbjct: 3 RVSIVEKSQLFLKAIVEGVPPSLVNSLRRVIISELPVMAIDTVVVVNNTSVMYDEFLAQR 62
Query: 137 LGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELP 196
LGLIP+ E T T G+ L
Sbjct: 63 LGLIPLTTPLHSLPTYEECATGVADPT--------------------------ECGTRLV 96
Query: 197 LETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKG 256
L+ D + + T S D++P + DI I +L GQ I +EA+A G
Sbjct: 97 LQVTADGDVTVYSGDLT--SERPDVVPVYK--------DIPIVKLVKGQSIVIEAYAKLG 146
Query: 257 IGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVK-TCPVNVFDIEDIGSGKKRATV 315
I K HAKW ATA Y P+++ ++DE ++ K CP D+ED
Sbjct: 147 IAKDHAKWQ-AATASYYYYPKVI----IKDEKCREICKEICP----DLED---------- 187
Query: 316 AQPRACTL-----CRECLRCG--EEWEK 336
P CT C++ + G EWEK
Sbjct: 188 --PVKCTFNKAWTCKDLCKGGLDVEWEK 213
>sp|Q8ZYQ3|RPOD_PYRAE DNA-directed RNA polymerase subunit D OS=Pyrobaculum aerophilum
(strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC
100827) GN=rpoD PE=3 SV=1
Length = 260
Score = 73.9 bits (180), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/191 (32%), Positives = 93/191 (48%), Gaps = 45/191 (23%)
Query: 94 GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVD----PRLF 149
G+ ++ N+ RR++I+ELP MAI+ V++ NNTSV+ DE+LAHRLGLIP+ P
Sbjct: 20 GVPPSLVNSLRRVIISELPVMAIDNVVVVNNTSVMYDEMLAHRLGLIPLTTPLQSLPPYE 79
Query: 150 EYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKP 209
+ +S +E +T RLT++ +E S +P
Sbjct: 80 DCVSGLADPSECST--------------RLTLQVT--------AEGDTTIYSGDLASDRP 117
Query: 210 RTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVAT 269
D++P + DI I +L GQ I LEA+A G+ K HAKW AT
Sbjct: 118 ----------DVVPVYK--------DIPIVKLVKGQSIVLEAYAKLGVAKDHAKWQ-AAT 158
Query: 270 AWYRMLPEIVL 280
A Y P++V+
Sbjct: 159 ASYYYYPKVVV 169
>sp|Q9HJD9|RPOD_THEAC DNA-directed RNA polymerase subunit D OS=Thermoplasma acidophilum
(strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 /
AMRC-C165) GN=rpoD PE=3 SV=1
Length = 271
Score = 73.2 bits (178), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 64/235 (27%), Positives = 101/235 (42%), Gaps = 51/235 (21%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVL------------IANNT 125
V++ +L+ + F++ GI + ANA RR LI ++P +AIE V + +++
Sbjct: 3 VKIFKLSDKYIRFEIDGITPSQANALRRTLINDIPKLAIENVTFHHGEIRDSEGNVYDSS 62
Query: 126 SVIQDEVLAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNE 185
+ DE++AHRLGLIP+ D T+ F+ C G L T
Sbjct: 63 LPLFDEMVAHRLGLIPLKTDL----------------TMNFRDQCSCGGKGCSLCTVTYS 106
Query: 186 LKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQ 245
+ L + + + S+P DL+P P I +LGP Q
Sbjct: 107 INKLGPSTVFSSDLQAVSHP--------------DLIPVDGEIP--------IVKLGPKQ 144
Query: 246 EIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNV 300
I + A A+ G K HAKW + Y+ E + + + ED +KL CP +V
Sbjct: 145 AILITAEAILGTAKEHAKWQVTSGVSYKYHREFHVSKK-DFEDWQKLKGACPKSV 198
>sp|Q97B93|RPOD_THEVO DNA-directed RNA polymerase subunit D OS=Thermoplasma volcanium
(strain ATCC 51530 / DSM 4299 / JCM 9571 / NBRC 15438 /
GSS1) GN=rpoD PE=3 SV=1
Length = 271
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 65/236 (27%), Positives = 103/236 (43%), Gaps = 51/236 (21%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVL------------IANNT 125
V++ +L+ M F++ GI + ANA RR LI ++P +AIE V + +++
Sbjct: 3 VKIFKLSDKYMSFEIDGITPSQANALRRTLINDIPKLAIENVTFHHGEIRDAEGNVYDSS 62
Query: 126 SVIQDEVLAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNE 185
+ DE++AHRLGLIP+ D L F+ C G L T
Sbjct: 63 LPLFDEMVAHRLGLIPLKTDLSL----------------NFRDQCSCGGKGCSLCTVTYS 106
Query: 186 LKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQ 245
+ + S + + + S+P DL+ P+ P DI I +LG Q
Sbjct: 107 INKIGPASVMSGDIQAISHP--------------DLV------PVDP--DIPIVKLGAKQ 144
Query: 246 EIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVF 301
I + A A+ G K HAKW + Y+ E + + + ED K+ + CP +V
Sbjct: 145 AILITAEAILGTAKEHAKWQVTSGVAYKYHREFEVNKKLF-EDWAKIKERCPKSVL 199
>sp|Q8U0E4|RPOD_PYRFU DNA-directed RNA polymerase subunit D OS=Pyrococcus furiosus
(strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN=rpoD
PE=3 SV=1
Length = 261
Score = 72.0 bits (175), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 56/196 (28%), Positives = 88/196 (44%), Gaps = 45/196 (22%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRL 137
V+++ +D ++F L G+ + ANA RR ++ E+PT A+++V N S + DE++AHRL
Sbjct: 6 VQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHRL 65
Query: 138 GLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPL 197
+IP+ FE + + T+ L E GP + V + +LK
Sbjct: 66 AMIPLTTPVDRFEL---DALELDDYTVTLSL----EAEGPGI-VYSGDLK---------- 107
Query: 198 ETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGI 257
+P KP NP +I I +L GQ + A+A G
Sbjct: 108 ----SDDPDVKPV-----------------NP-----NIPIVKLAEGQRLVFNAYAKLGR 141
Query: 258 GKTHAKWSPVATAWYR 273
GK HAKW P +Y+
Sbjct: 142 GKDHAKWQP-GFVYYK 156
>sp|Q9YB53|RPOD_AERPE DNA-directed RNA polymerase subunit D OS=Aeropyrum pernix (strain
ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
GN=rpoD PE=3 SV=2
Length = 286
Score = 69.3 bits (168), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 52/207 (25%), Positives = 96/207 (46%), Gaps = 40/207 (19%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRL 137
VEV+ L + + G NA RR +++++PTMA++ I +NT+ + DE++AHRL
Sbjct: 9 VEVVELDSLRVRLRIRGYPVVFVNAIRRTVLSDVPTMAVDYAYIFDNTTAVYDEMVAHRL 68
Query: 138 GLIPIIVDPRLFEYMSENDTS----NEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
GL+ + + + +Y + + +E++ V
Sbjct: 69 GLVVLDSNEAVEKYRRPEECAGKEPSEEDCFV---------------------------- 100
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDIT-IARLGPGQEIELEAH 252
E+ LE + D+ + + ++ DL S+ ++P+ T + + PGQ I ++A
Sbjct: 101 EVSLEAEVDAEGETG-----RYITAGDL--SISDPQVKPVYPETPLIYVAPGQRIHVQAF 153
Query: 253 AVKGIGKTHAKWSPVATAWYRMLPEIV 279
A G GK H KWSP + + R P ++
Sbjct: 154 ARLGRGKEHTKWSPASLSVLRYTPILI 180
>sp|Q00813|RPOD_HALMA DNA-directed RNA polymerase subunit D OS=Haloarcula marismortui
(strain ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809)
GN=rpoD PE=3 SV=1
Length = 259
Score = 68.6 bits (166), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 60/220 (27%), Positives = 96/220 (43%), Gaps = 53/220 (24%)
Query: 72 FCNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDE 131
++ VE + + + + GI A AN RR ++A++PT +I+ V + NTSV+ +E
Sbjct: 1 MTQDYEVEFVERGEREARILVRGITPAFANGIRRAMVADVPTFSIDTVRVIENTSVMFNE 60
Query: 132 VLAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPN 191
+ RLGL+P+ D FE
Sbjct: 61 QIGLRLGLVPLTTDLDDFEI---------------------------------------- 80
Query: 192 GSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEA 251
G E+ L D PS+ Y+S S D + E +++ I P++D L GQ +E+EA
Sbjct: 81 GDEVTLSLSVDG-PST---AYSSDLVSSDPMVEAADDNI-PIID-----LKEGQRLEVEA 130
Query: 252 HAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDV---EDED 288
AV G+ HAK YR L ++ ++ D+ ED+D
Sbjct: 131 DAVLDTGREHAKHQGGVAVGYRHLQQVEVVGDLGEFEDDD 170
>sp|Q6KZP5|RPOD_PICTO DNA-directed RNA polymerase subunit D OS=Picrophilus torridus
(strain ATCC 700027 / DSM 9790 / JCM 10055 / NBRC
100828) GN=rpoD PE=3 SV=1
Length = 271
Score = 67.0 bits (162), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 55/208 (26%), Positives = 87/208 (41%), Gaps = 50/208 (24%)
Query: 78 VEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVL------------IANNT 125
+++I L + ++F + GI AIAN+ RR LI ++P +AIE V+ + +++
Sbjct: 2 LDIIELKDNYIKFSISGITPAIANSIRRTLINDIPKLAIENVVFHHGEIRDSEGNVYDSS 61
Query: 126 SVIQDEVLAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNE 185
+ DEV+A RLGLIP+ D ++ F+ C G L
Sbjct: 62 LPLFDEVVALRLGLIPLKTDLKM----------------NFRDQCSCNGEGCDLCTVKYS 105
Query: 186 LKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQ 245
+ L + P +NP K P+ PM I I +L GQ
Sbjct: 106 INKLGPADVFSSDLIPINNPDLK--------------------PVDPM--IPIVKLKKGQ 143
Query: 246 EIELEAHAVKGIGKTHAKWSPVATAWYR 273
+ + A+ G GK HAKW + Y+
Sbjct: 144 AMLVTCEAIMGRGKDHAKWQVTSGVSYK 171
>sp|A3MXZ5|RPOD_PYRCJ DNA-directed RNA polymerase subunit D OS=Pyrobaculum calidifontis
(strain JCM 11548 / VA1) GN=rpoD PE=3 SV=1
Length = 258
Score = 62.0 bits (149), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 56/189 (29%), Positives = 87/189 (46%), Gaps = 41/189 (21%)
Query: 94 GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMS 153
G+ ++ N+ RR++I+ELP +AI+ V++ NNTSV+ DE+LAHRLGLIP+ + +
Sbjct: 20 GVPPSLINSLRRVIISELPVLAIDSVVVVNNTSVMYDEMLAHRLGLIPLTTPLKDLPPIE 79
Query: 154 ENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYT 213
+ CE G L + SE + N + Y
Sbjct: 80 D-----------------CESG-------------LVDPSECTVRLTLQVNATGDVVVYA 109
Query: 214 S--FSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAW 271
+ D+ P + DI I +L GQ + +EA+A G + HAKW A A
Sbjct: 110 GDLVADRPDVAPVYK--------DIPIVKLVEGQSVVVEAYAKLGRARDHAKWQ-AALAS 160
Query: 272 YRMLPEIVL 280
Y P++V+
Sbjct: 161 YYYYPKVVV 169
>sp|Q3IQT6|RPOD_NATPD DNA-directed RNA polymerase subunit D OS=Natronomonas pharaonis
(strain DSM 2160 / ATCC 35678) GN=rpoD PE=3 SV=1
Length = 247
Score = 59.7 bits (143), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 58/198 (29%), Positives = 82/198 (41%), Gaps = 52/198 (26%)
Query: 94 GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVDPRLFEYMS 153
G+ A AN RR +IA++PT++I+ + + N+SV+ DE LA RLGL+P ++
Sbjct: 23 GVTPAFANGLRRAMIADVPTLSIDTLRVVENSSVMFDEQLALRLGLVP----------LT 72
Query: 154 ENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYT 213
D T+ + V GP T + +L
Sbjct: 73 TPDDYEPGETVTLAIDV----EGP-ATAYSGDL--------------------------- 100
Query: 214 SFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYR 273
SS + P N PI + D Q++ELEA A G GK HAK YR
Sbjct: 101 -VSSDDKVQPADENIPIIELKD--------DQQLELEADATLGRGKDHAKHQGGVAVGYR 151
Query: 274 MLPEI-VLLEDVEDEDAE 290
L + V+ E E ED E
Sbjct: 152 HLQRVEVVGEKGEFEDDE 169
>sp|Q9HQJ4|RPOD_HALSA DNA-directed RNA polymerase subunit D OS=Halobacterium salinarum
(strain ATCC 700922 / JCM 11081 / NRC-1) GN=rpoD PE=3
SV=1
Length = 248
Score = 57.8 bits (138), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 57/213 (26%), Positives = 85/213 (39%), Gaps = 55/213 (25%)
Query: 73 CNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEV 132
+F VE + + F + I A AN RR ++ ++PT++I+ V N+SV+ DE
Sbjct: 3 SQDFDVEFVDRDDREARFVVRNITPAFANGIRRAILVDVPTLSIDTVRFVENSSVMFDEQ 62
Query: 133 LAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNG 192
L RLGL+P+ E+ + E T+ + GP
Sbjct: 63 LGLRLGLVPLTT--------PEDYAAGEAVTLALDVE------GPG-------------- 94
Query: 193 SELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLD--ITIARLGPGQEIELE 250
T++S DL+ SN+P D I I L Q +ELE
Sbjct: 95 --------------------TAYSG--DLV---SNDPEVEAADENIPIIELKDDQRLELE 129
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLPEIVLLED 283
A AV G G+ HAK YR L + ++ D
Sbjct: 130 ADAVMGHGRDHAKHQGGVAVGYRHLQRVHVVGD 162
>sp|B0R4Y2|RPOD_HALS3 DNA-directed RNA polymerase subunit D OS=Halobacterium salinarum
(strain ATCC 29341 / DSM 671 / R1) GN=rpoD PE=3 SV=1
Length = 248
Score = 57.8 bits (138), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 57/213 (26%), Positives = 85/213 (39%), Gaps = 55/213 (25%)
Query: 73 CNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEV 132
+F VE + + F + I A AN RR ++ ++PT++I+ V N+SV+ DE
Sbjct: 3 SQDFDVEFVDRDDREARFVVRNITPAFANGIRRAILVDVPTLSIDTVRFVENSSVMFDEQ 62
Query: 133 LAHRLGLIPIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNG 192
L RLGL+P+ E+ + E T+ + GP
Sbjct: 63 LGLRLGLVPLTT--------PEDYAAGEAVTLALDVE------GPG-------------- 94
Query: 193 SELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPIRPMLD--ITIARLGPGQEIELE 250
T++S DL+ SN+P D I I L Q +ELE
Sbjct: 95 --------------------TAYSG--DLV---SNDPEVEAADENIPIIELKDDQRLELE 129
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLPEIVLLED 283
A AV G G+ HAK YR L + ++ D
Sbjct: 130 ADAVMGHGRDHAKHQGGVAVGYRHLQRVHVVGD 162
>sp|P68646|FIXX_ECOLI Ferredoxin-like protein FixX OS=Escherichia coli (strain K12)
GN=fixX PE=3 SV=1
Length = 95
Score = 33.1 bits (74), Expect = 3.3, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 276 PEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLRCG---E 332
P IV+ D + + E LVK CP ++ +D GS R A C CR L G E
Sbjct: 23 PHIVVKADADKQALELLVKACPAGLYKKQDDGS--VRFDYAGCLECGTCR-ILGLGSALE 79
Query: 333 EWE 335
+WE
Sbjct: 80 QWE 82
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.319 0.135 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 138,998,280
Number of Sequences: 539616
Number of extensions: 6036257
Number of successful extensions: 14591
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 51
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 14455
Number of HSP's gapped (non-prelim): 90
length of query: 357
length of database: 191,569,459
effective HSP length: 119
effective length of query: 238
effective length of database: 127,355,155
effective search space: 30310526890
effective search space used: 30310526890
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (28.5 bits)