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= psy5332
(287 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q3T0Q3|RPB3_BOVIN DNA-directed RNA polymerase II subunit RPB3 OS=Bos taurus GN=POLR2C
PE=2 SV=1
Length = 275
Score = 353 bits (906), Expect = 9e-97, Method: Compositional matrix adjust.
Identities = 159/222 (71%), Positives = 195/222 (87%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+AIDWVQ++ANS+VL DEFIA R+GLIPLTSD++VD++ YSRDCTC +FC ECSVEFTLD
Sbjct: 45 IAIDWVQIDANSSVLHDEFIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLD 104
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V+C +DQTRHVT+ DL S RV+PVTSRNRD D N+Y E DDILIVKLRKGQELRLRAY
Sbjct: 105 VRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAY 164
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYNWEA 180
AKKGFGKEHAKWNPTAGV FEYDPDN++RHT++PKP+EWPKSEYSELDE + +APY+
Sbjct: 165 AKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNG 224
Query: 181 KPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHD 222
KP ++++NVES G+L+PE IV+ ++ LK+KLS+LQTQL+H+
Sbjct: 225 KPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHE 266
>sp|P19387|RPB3_HUMAN DNA-directed RNA polymerase II subunit RPB3 OS=Homo sapiens
GN=POLR2C PE=1 SV=2
Length = 275
Score = 351 bits (900), Expect = 4e-96, Method: Compositional matrix adjust.
Identities = 158/222 (71%), Positives = 194/222 (87%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+AIDWVQ++ANS+VL DEFIA R+GLIPL SD++VD++ YSRDCTC +FC ECSVEFTLD
Sbjct: 45 IAIDWVQIDANSSVLHDEFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLD 104
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V+C +DQTRHVT+ DL S RV+PVTSRNRD D N+Y E DDILIVKLRKGQELRLRAY
Sbjct: 105 VRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAY 164
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYNWEA 180
AKKGFGKEHAKWNPTAGV FEYDPDN++RHT++PKP+EWPKSEYSELDE + +APY+
Sbjct: 165 AKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNG 224
Query: 181 KPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHD 222
KP ++++NVES G+L+PE IV+ ++ LK+KLS+LQTQL+H+
Sbjct: 225 KPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHE 266
>sp|P97760|RPB3_MOUSE DNA-directed RNA polymerase II subunit RPB3 OS=Mus musculus
GN=Polr2c PE=2 SV=1
Length = 275
Score = 337 bits (863), Expect = 8e-92, Method: Compositional matrix adjust.
Identities = 153/222 (68%), Positives = 188/222 (84%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+AIDWVQ++ NS+VL DEFIA R+GLIPLTSD++VD++ YSRDCTC +FC ECSVEFTLD
Sbjct: 45 IAIDWVQIDGNSSVLHDEFIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLD 104
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V+C +DQTRHVT+ DL S RV+PVTSRNRD D N+Y E DDILIVKLRKGQELRLRAY
Sbjct: 105 VRCNEDQTRHVTSRDLISNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAY 164
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYNWEA 180
KK GKEHAKWNPTAGV FEYDPDN +RHT++PKP+E PKSEYSELDE + +APY+
Sbjct: 165 VKKRSGKEHAKWNPTAGVAFEYDPDNGLRHTVYPKPEEGPKSEYSELDEDESQAPYDPNG 224
Query: 181 KPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHD 222
KP ++++NVES G+L+PE I + ++ LK+KLS+LQTQL+H+
Sbjct: 225 KPERFYYNVESCGSLRPETIGLSALSGLKKKLSDLQTQLSHE 266
>sp|Q54DH7|RPB3_DICDI DNA-directed RNA polymerase II subunit rpb3 OS=Dictyostelium
discoideum GN=polr2c PE=3 SV=1
Length = 302
Score = 187 bits (475), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 103/256 (40%), Positives = 153/256 (59%), Gaps = 41/256 (16%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
M ID V+ E+N++VL DEFIA R+GLIPL SD + D+ Y+RDC+C D C +CSVE L+
Sbjct: 50 MCIDLVEFESNNSVLCDEFIAHRLGLIPLVSDNI-DKFCYTRDCSCSDRCDQCSVELRLN 108
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
VKC +++ R VT++DL S ++ V+PV+S+ ++ + +I IVKLR+GQE++LRA
Sbjct: 109 VKCTENRPRDVTSSDLLSQNSAVIPVSSQVTSSNSEQ-----EIPIVKLRRGQEIKLRAI 163
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDP-----DNSMRHTLFPKPDEWPKS------EYSELDE 169
AKKG GKEHAKW+P+ +++ P N + + +EW S YS
Sbjct: 164 AKKGVGKEHAKWSPSCVATYQFQPIIVLNQNRIDELTDQQKEEWVGSCPTKVYSYSPHQS 223
Query: 170 TQH---EAPY---------------------NWEAKPNKYFFNVESAGALKPENIVIMGV 205
TQ E P + E K +K+ F VES+GALKPE+IV+ +
Sbjct: 224 TQQVTIEDPLRCVYCLECKKKAESFGKPDLVHLEQKQDKFIFTVESSGALKPEDIVLYAI 283
Query: 206 TVLKQKLSNLQTQLAH 221
++K+KL+++Q Q+A
Sbjct: 284 QIIKRKLTDIQGQMAE 299
>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 = 174 bits (441), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 94/234 (40%), Positives = 147/234 (62%), Gaps = 13/234 (5%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+AID V++E N+TVL+DEFIA R+GLIPL S ++ +++ YSRDC C D C +CSV TL
Sbjct: 44 LAIDSVEVETNTTVLADEFIAHRLGLIPLQSMDI-EQLEYSRDCFCEDHCDKCSVVLTLQ 102
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ T +V + DL V + RN + + E + +LI KLRKGQEL+L
Sbjct: 103 AFGESESTTNVYSKDL----VIVSNLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCV 158
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLF----PKPDEWPKSEYSELDETQHEA-P 175
AKKG KEHAKW P A + FEYDP N ++HT + EWP+S+ E ++ +E P
Sbjct: 159 AKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWPQSKNCEYEDPPNEGDP 218
Query: 176 YNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNL---QTQLAHDRVFY 226
++++A+ + ++ NVES G++ + +V+ G+ L++K++++ TQ+ D+V +
Sbjct: 219 FDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLALTQMDQDKVNF 272
>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 = 163 bits (413), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 89/234 (38%), Positives = 139/234 (59%), Gaps = 20/234 (8%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVD----RILYSRDCTCVDFCSECSVE 56
+AID V++ N++V+ DEF+A R+G+IPL S + + + Y+R+C C +C +CSVE
Sbjct: 43 VAIDLVEINVNTSVMPDEFLAHRLGMIPLDSSNIDEPPPVGLEYTRNCDCDQYCPKCSVE 102
Query: 57 FTLDVKCVDDQTRHVTTADL--KSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQE 114
L+ KC + T + DL S + P+ AD G LI KLRK QE
Sbjct: 103 LFLNAKCTGEGTMEIYARDLVVSSNSSLGHPIL-----ADPKSRGP----LICKLRKEQE 153
Query: 115 LRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLF----PKPDEWPKSEYSELDET 170
+ LR AKKG KEHAKW+PT+ V FEYDP N ++HT + EWPKS+ ++ +E
Sbjct: 154 ISLRCIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFENDADAEWPKSKNADWEEP 213
Query: 171 QHEA-PYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHDR 223
E P+N++ +P +++ +VES G++ P I++ G+ +L++KL+ L L ++
Sbjct: 214 PREGEPFNFQEEPRRFYMDVESVGSIPPNEIMVQGLRILQEKLAVLVRDLDEEQ 267
>sp|Q39211|RPB3A_ARATH DNA-directed RNA polymerase II subunit RPB3-A OS=Arabidopsis
thaliana GN=RPB36A PE=2 SV=1
Length = 319
Score = 160 bits (405), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 109/281 (38%), Positives = 148/281 (52%), Gaps = 39/281 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDF---CSECSVEF 57
+AID V++E NS+VL+DEFIA R+GLIPLTS+ + + +SRDC D C CSVEF
Sbjct: 48 VAIDLVEIEVNSSVLNDEFIAHRLGLIPLTSERAM-SMRFSRDCDACDGDGQCEFCSVEF 106
Query: 58 TLDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRL 117
L KCV DQT VT+ DL S D V PV D+ +++ E I+IVKLR+GQEL+L
Sbjct: 107 RLSSKCVTDQTLDVTSRDLYSADPTVTPV-DFTIDSSVSDSSEHKGIIIVKLRRGQELKL 165
Query: 118 RAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYN 177
RA A+KG GK+HAKW+P A V F Y+PD + + D E +L
Sbjct: 166 RAIARKGIGKDHAKWSPAATVTFMYEPDIIINEDMM---DTLSDEEKIDL---------- 212
Query: 178 WEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHDRVFYVINEA---PYN 234
E+ P K F + P V +Q + +D EA P
Sbjct: 213 IESSPTKVF-------GMDP---------VTRQVVVVDPEAYTYDEEVIKKAEAMGKPGL 256
Query: 235 WEAKP--NKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 273
E P + + F VES GA+K +V+ + +LKQKL ++
Sbjct: 257 IEISPKDDSFIFTVESTGAVKASQLVLNAIDLLKQKLDAVR 297
>sp|Q39212|RPB3B_ARATH DNA-directed RNA polymerase II subunit RPB3-B OS=Arabidopsis
thaliana GN=RPB36B PE=1 SV=2
Length = 319
Score = 144 bits (362), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 99/279 (35%), Positives = 138/279 (49%), Gaps = 35/279 (12%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYS--RDCTCVDFCSECSVEFT 58
MAI V++E NS+VL+DEFIA R+ LIPLTS+ + DC + C CSVEF
Sbjct: 48 MAIHLVKIEVNSSVLNDEFIAQRLSLIPLTSERAMSMRFCQDCEDCNGDEHCEFCSVEFP 107
Query: 59 LDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLR 118
L KCV DQT VT+ DL S D V PV ++ ++ E I+I KLR+GQEL+L+
Sbjct: 108 LSAKCVTDQTLDVTSRDLYSADPTVTPV-DFTSNSSTSDSSEHKGIIIAKLRRGQELKLK 166
Query: 119 AYAKKGFGKEHAKWNPTAGVCFEYDPD----NSMRHTLFPKPDEWPKSEYSELDETQHEA 174
A A+KG GK+HAKW+P A V + Y+PD M +TL T E
Sbjct: 167 ALARKGIGKDHAKWSPAATVTYMYEPDIIINEEMMNTL-----------------TDEEK 209
Query: 175 PYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHDRVFYVINEAPYN 234
E+ P K F + P + G V+ + + + +
Sbjct: 210 IDLIESSPTKVF-------GIDP----VTGQVVVVDPEAYTYDEEVIKKAEAMGKPGLIE 258
Query: 235 WEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 273
K + + F VES GALK +V+ + +LKQKL ++
Sbjct: 259 IHPKHDSFVFTVESTGALKASQLVLNAIDILKQKLDAIR 297
>sp|P16925|CNJC_TETTH Conjugation stage-specific protein OS=Tetrahymena thermophila
GN=CNJC PE=2 SV=1
Length = 310
Score = 107 bits (268), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 88/285 (30%), Positives = 135/285 (47%), Gaps = 38/285 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+AI V++ N++ L DE+IA R+GLIPL S +V D Y +C C C C++ F L
Sbjct: 42 IAIHNVKVYENTSSLPDEYIAHRLGLIPLNSAKV-DDYNYIWNCNCQGECDRCTIHFDLR 100
Query: 61 VKCVDDQTRHVTTADLKS----TD---ARVVPVTSRNRDADMNEYGETDD--ILIVKLRK 111
V ++ VT+ DLK TD R + V S RD EYG + I I+KL K
Sbjct: 101 VSNFTNEVLEVTSLDLKQRQDHTDEDAVRPIKVYSILRD----EYGNKREVGIPIIKLSK 156
Query: 112 GQELRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQ 171
GQ++ A+KG GK H+KWNP F +P+ +F + E LD Q
Sbjct: 157 GQQIHFECEAQKGIGKMHSKWNPVCISTFSVEPE-----IIFDQ-------EIQNLDIEQ 204
Query: 172 HEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHDRVFYVINEA 231
+A N A P K F L+ ++ M ++ + ++ +
Sbjct: 205 KKALVN--ACPTKVFGINPHTNTLEVQDH--MKCMYCEECVYKCAEDFQKPKLIKI---- 256
Query: 232 PYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQL 276
+ K +K+FF VE+ G +KP ++ G + L+QKL ++ Q+
Sbjct: 257 ----DHKKDKFFFKVETTGVMKPVEVLRRGFSTLRQKLDFMREQI 297
>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 = 98.2 bits (243), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 70/240 (29%), Positives = 113/240 (47%), Gaps = 41/240 (17%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+AI+ V + N + DE +A R+GLIP+ +D +D + +C C C C V F L
Sbjct: 39 LAIEDVNIYKNDAKMFDEVLAHRLGLIPIVTD--LDSYVMPSECDCESGCQHCRVSFLLK 96
Query: 61 VKCVD-DQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
KC + + ++ V + DLKS D V PV D I IV+LR+G+E+ L A
Sbjct: 97 EKCEEGNDSKIVYSKDLKSDDPAVKPVY--------------DTIPIVRLREGEEVELEA 142
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDP----DNSMRHTLFPKPDEWPKSEYSELDET----- 170
A+ G G EHAKW T ++Y P D + L +E P++ D+T
Sbjct: 143 IAELGLGSEHAKWQATTTCGYKYYPKIEIDTEKVNDLEEYVEECPRNVLQIEDDTLVVGN 202
Query: 171 ---------------QHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNL 215
+ + + + +KY F +E+ G+LKP +++ + +L +K N+
Sbjct: 203 IENCSTCRTCQRLSEKDDNAIVVDFEESKYIFKIETDGSLKPFDVLTIACDILSEKADNI 262
>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 = 92.4 bits (228), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 68/234 (29%), Positives = 106/234 (45%), Gaps = 32/234 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
MA+D V N++ L DE +A R+ +IP +SDE +D +C C + C C L
Sbjct: 39 MAVDEVYFIENNSPLYDEILAHRLAMIPFSSDEALDHYRPPEECAECKENCDGCYARVYL 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
DV + +T V + DLK+ D +VP++ +I IV L Q++ L A
Sbjct: 99 DVGANEGETVMVYSRDLKTDDPAIVPISG--------------NIPIVLLGPKQKVTLEA 144
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYS----------ELDE 169
+ G+GKEH K++P + Y P ++ + P+ + E+
Sbjct: 145 RLRLGYGKEHIKFSPVSIAVVRYYPHVEVKGNCEKAFEVCPEGVFGMENGKLFVKNEVAC 204
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 216
T E + A NKY +ES G+LKPE I+I L +KL+ L+
Sbjct: 205 TLCEECIKYCENNIFISAVENKYILEIESVGSLKPERILIEAGKSLLRKLNQLK 258
>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 = 90.9 bits (224), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 69/237 (29%), Positives = 107/237 (45%), Gaps = 33/237 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
MA+D V N++ L DE +A R+ L+P SDE ++ +C C + C C L
Sbjct: 39 MAVDEVYFIENNSPLYDEILAHRLALVPFVSDEALEHYRPPEECAECKENCDGCYNRVYL 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
DV+ DQ + + DLKS D + PV+ I IV L Q++ L A
Sbjct: 99 DVE-AKDQPLMIYSRDLKSEDQMITPVSG--------------AIPIVLLGSKQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYS----------ELDE 169
+ G+GKEH K++P + Y P ++ + P+ ++ EL
Sbjct: 144 RLRLGYGKEHIKYSPVSVSIVRYYPKVTVLGNCEKAVEVCPEGVFAMENNKLVVKNELSC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQL 219
E + E+ NK+ +ES G+LKPE I+I L +KLS L+++L
Sbjct: 204 ILCEECLKYCAGSVSIESVENKFILEIESVGSLKPERILIEASKSLLRKLSELKSKL 260
>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 = 89.4 bits (220), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 71/275 (25%), Positives = 116/275 (42%), Gaps = 55/275 (20%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSD-EVVDRILYSRDCTCVDFCSECSVEFTL 59
+AI++V + N + DE +A R+GL+PL +D E + + +C C ++CSECSV TL
Sbjct: 39 LAIEYVNMYRNDAKMFDEVLAHRLGLVPLAADPEFAESLKMPEECDCEEYCSECSVSLTL 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
K V + DL S V PV DI +VKL EL L A
Sbjct: 99 RKK----GPGVVYSGDLVSETPAVKPVYP--------------DIPLVKLGDDDELELEA 140
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYNWE 179
A+ G G+EHAKW PT ++Y +P+ E+S E E E
Sbjct: 141 VAQLGVGREHAKWEPTTACAYKY----------------YPRIEFS---EDCDECLECIE 181
Query: 180 AKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHDRVFYVINEAPYNWEAKP 239
A P ++G K + +L+ ++ + +
Sbjct: 182 ACPRD-----------------VLGEESGKPVVVDLENCSMCKSCVRACDKRAIDVGYEE 224
Query: 240 NKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQT 274
K+ F +E+ G++ P+++++ +L+ K + T
Sbjct: 225 GKFIFRIETDGSVDPKDVLLKACDILRDKAEQVIT 259
>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 = 86.3 bits (212), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 64/239 (26%), Positives = 108/239 (45%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
MA+D V N++ L DE +A R+ LIP S+E +D + +C C + C +C + +
Sbjct: 39 MAVDDVYFIENNSPLYDEILAHRLALIPFMSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + ++ R + + D+KS D VVP++ DI IV L Q++ L A
Sbjct: 99 EAE-APNEPRMIYSKDIKSEDPSVVPISG--------------DIPIVLLGTNQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLSVVRYYPKVEILANCEKAVNVCPEGVFELKDGKLSVKNELSC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
M+ID V N++ L DE +A R+ LIP TS+E +D + +C C + C +C + +
Sbjct: 39 MSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + + ++ + + + D+KS D +VP++ DI IV L Q++ L A
Sbjct: 99 EAEAL-NEPKMLYSKDIKSEDPSIVPISG--------------DIPIVLLGANQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELAC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
M+ID V N++ L DE +A R+ LIP TS+E +D + +C C + C +C + +
Sbjct: 39 MSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + + ++ + + + D+KS D +VP++ DI IV L Q++ L A
Sbjct: 99 EAEAL-NEPKMLYSKDIKSEDPSIVPISG--------------DIPIVLLGANQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELAC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
M+ID V N++ L DE +A R+ LIP TS+E +D + +C C + C +C + +
Sbjct: 39 MSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + + ++ + + + D+KS D +VP++ DI IV L Q++ L A
Sbjct: 99 EAEAL-NEPKMLYSKDIKSEDPSIVPISG--------------DIPIVLLGANQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELAC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
M+ID V N++ L DE +A R+ LIP TS+E +D + +C C + C +C + +
Sbjct: 39 MSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + + ++ + + + D+KS D +VP++ DI IV L Q++ L A
Sbjct: 99 EAEAL-NEPKMLYSKDIKSEDPSIVPISG--------------DIPIVLLGANQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELAC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
M+ID V N++ L DE +A R+ LIP TS+E +D + +C C + C +C + +
Sbjct: 39 MSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + + ++ + + + D+KS D +VP++ DI IV L Q++ L A
Sbjct: 99 EAEAL-NEPKMLYSKDIKSEDPSIVPISG--------------DIPIVLLGANQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELAC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 33/239 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCT-CVDFCSECSVEFTL 59
M+ID V N++ L DE +A R+ LIP TS+E +D + +C C + C +C + +
Sbjct: 39 MSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYI 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ + + ++ + + + D+KS D +VP++ DI IV L Q++ L A
Sbjct: 99 EAEAL-NEPKMLYSKDIKSEDPSIVPISG--------------DIPIVLLGANQKISLEA 143
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEY----------SELDE 169
+ G+GKEHAK+ P + Y P + P+ + +EL
Sbjct: 144 RLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELAC 203
Query: 170 TQHEAPYNW-------EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
T E + + +KY +ES G+LKPE I++ + +K+ L+ +L
Sbjct: 204 TLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERILLEAGKSIIRKIEELEKKLVE 262
>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 = 80.5 bits (197), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 70/244 (28%), Positives = 109/244 (44%), Gaps = 43/244 (17%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSE-CSVEFTL 59
MA+D+ + N+T + DE +A R+GL+ L S+E V++ +C + E C VE +L
Sbjct: 45 MAVDYAYIFDNTTAVYDEMVAHRLGLVVLDSNEAVEKYRRPEECAGKEPSEEDCFVEVSL 104
Query: 60 --DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRL 117
+V + R++T DL +D +V PV Y ET I + GQ + +
Sbjct: 105 EAEVDAEGETGRYITAGDLSISDPQVKPV-----------YPETPLIYVA---PGQRIHV 150
Query: 118 RAYAKKGFGKEHAKWNPTAGVCFEYDP----DNSMRH-------TLFPKPDEWPKS---- 162
+A+A+ G GKEH KW+P + Y P D+S + +P+ E KS
Sbjct: 151 QAFARLGRGKEHTKWSPASLSVLRYTPILIYDSSKAGDECLECLSAYPQVVEALKSGGKG 210
Query: 163 --------EYSELD---ETQHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQK 211
S L ET + VES GAL+PE IV + + L++K
Sbjct: 211 SLVLEGLRRTSGLRYCAETACRGAVEVRYDSSNLDLEVESTGALRPEKIVELAIRELEEK 270
Query: 212 LSNL 215
+
Sbjct: 271 VKRF 274
>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 = 80.1 bits (196), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 80/236 (33%), Positives = 106/236 (44%), Gaps = 38/236 (16%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDC-TCVDFCSECSVEFTL 59
MAID+V + +N++V+ DE +A R+GL+PLT+ + + DC T + SEC+V L
Sbjct: 40 MAIDYVVIVSNTSVMYDEMLAHRLGLVPLTTP--LQALPPIEDCETGLVDPSECTVRLML 97
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+ D+ V + DL S VVPV DI IVKL KGQ + L A
Sbjct: 98 QINAESDKI--VYSGDLVSERPDVVPVYK--------------DIPIVKLVKGQSIILEA 141
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYN-- 177
YAK G KEHAKW A + Y P + L K E K EL E +N
Sbjct: 142 YAKLGRAKEHAKWQ-AALASYYYYPRIKV---LDEKCKEECKDICKELT-NPFECTFNKA 196
Query: 178 WEAKP------------NKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
W + KY F VES G E + +LK+K S+ T L
Sbjct: 197 WTCRDICGDRLIVEWDRYKYVFWVESFGNYDVETALREAFRILKKKFSDFITTLTQ 252
>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 = 79.3 bits (194), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 75/245 (30%), Positives = 103/245 (42%), Gaps = 56/245 (22%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
A+D V+ N + L DE IA R+ +IPLT+ VDR + D +D ++T+
Sbjct: 42 FAVDEVEFYENDSALFDEIIAHRLAMIPLTTP--VDR--FELDALELD-------DYTVT 90
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ + V + DLKS D V PV +I IVKL +GQ L AY
Sbjct: 91 LSLEAEGPGIVYSGDLKSDDPDVKPVNP--------------NIPIVKLAEGQRLVFNAY 136
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWP-------------------- 160
AK G GK+HAKW P F Y ++ H P EW
Sbjct: 137 AKLGRGKDHAKWQP----GFVYYKYYTIVHISKSIP-EWKELKKLAKKRGLPVEETEEEV 191
Query: 161 -----KSEYSELDETQHEAPYNW-EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSN 214
K Y D ++E W E PN Y F VE+ G L E IV + + +L +K
Sbjct: 192 LVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSIALKILMRKADR 251
Query: 215 LQTQL 219
++L
Sbjct: 252 FISEL 256
>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 = 78.2 bits (191), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 79/234 (33%), Positives = 109/234 (46%), Gaps = 34/234 (14%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDC-TCVDFCSECSVEFTL 59
MAID V + N++V+ DE +A R+GLIPLT+ + + DC + + SEC+V FTL
Sbjct: 40 MAIDTVIVVNNTSVMYDEMLAHRLGLIPLTTP--LQSLPPIEDCESGLADPSECTVRFTL 97
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
V + T V + DL S VVPV DI IVKL KGQ + L A
Sbjct: 98 QVNADGEVT--VYSGDLVSERPDVVPVHK--------------DIPIVKLVKGQSIVLEA 141
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMR-HTLFPKPDEWPKSEYSELDETQHEAP--- 175
YAK G + HAKW A + Y P +R + + E + + L+ T ++A
Sbjct: 142 YAKLGRARGHAKWQ-AALASYYYYPRVEVRDESCRERCREVCRDLTNPLECTFNKAMTCR 200
Query: 176 --------YNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
+WE NKY F VES G + + +LK+K S LA
Sbjct: 201 DLCGDKLHVDWER--NKYVFWVESFGNYDVDTALREAFRILKRKYSLFLDALAR 252
>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 = 75.5 bits (184), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 72/255 (28%), Positives = 107/255 (41%), Gaps = 42/255 (16%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVD---FCSECSVEF 57
+A ++V N++V+ DE +A RIGL+PL D +L D D F E ++
Sbjct: 78 VAAEYVYFFNNTSVIQDEVLAHRIGLVPLKVDP---DMLTWVDSNLPDDEKFTDENTIVL 134
Query: 58 TLDVKCV---------DDQTRHVTTADLKSTDARVVPVTSRNRD-ADMNEYGETDDILIV 107
+L+VKC D A + + D + P ++ AD DIL+
Sbjct: 135 SLNVKCTRNPDAPKGSTDPKELYNNAHVYARDLKFEPQGRQSTTFADCPVVPADPDILLA 194
Query: 108 KLRKGQELRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTL-----------FPKP 156
KLR GQE+ L+A+ G G +HAK++P + + P ++ + FP
Sbjct: 195 KLRPGQEISLKAHCILGIGGDHAKFSPVSTASYRLLPQINILQPIKGESARRFQKCFPPG 254
Query: 157 ----DEWPKSEY---SELDETQHEAPYNWEAKP--------NKYFFNVESAGALKPENIV 201
DE Y + D E E N + FNVESAGA+ PE I
Sbjct: 255 VIGIDEGSDEAYVKDARKDTVSREVLRYEEFADKVKLGRVRNHFIFNVESAGAMTPEEIF 314
Query: 202 IMGVTVLKQKLSNLQ 216
V +LK K L+
Sbjct: 315 FKSVRILKNKAEYLK 329
Score = 37.4 bits (85), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 21/34 (61%)
Query: 240 NKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 273
N + FNVESAGA+ PE I V +LK K L+
Sbjct: 296 NHFIFNVESAGAMTPEEIFFKSVRILKNKAEYLK 329
>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 = 74.7 bits (182), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 78/234 (33%), Positives = 103/234 (44%), Gaps = 38/234 (16%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDC-TCVDFCSECSVEFTL 59
MAID V + N++V+ DE +A R+GLIPLT+ + + DC + + SECS TL
Sbjct: 40 MAIDNVVVVNNTSVMYDEMLAHRLGLIPLTTP--LQSLPPYEDCVSGLADPSECSTRLTL 97
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
V D T + + DL S VVPV DI IVKL KGQ + L A
Sbjct: 98 QVTAEGDTT--IYSGDLASDRPDVVPVYK--------------DIPIVKLVKGQSIVLEA 141
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYN-- 177
YAK G K+HAKW A + Y P ++ E K +L E E +N
Sbjct: 142 YAKLGVAKDHAKWQ-AATASYYYYPKVVVKSE---NCREMCKEICRQL-ENPIECSFNKA 196
Query: 178 WEAK------------PNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQL 219
W K NKY F VES G + +LK+K + +L
Sbjct: 197 WTCKDLCKEGLEVTWDKNKYVFWVESFGNYDVNTALREAFRILKRKFAVFAEEL 250
>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 = 73.6 bits (179), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/245 (30%), Positives = 104/245 (42%), Gaps = 56/245 (22%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
A+D V+ N + L DE IA R+ +IPL + DR + D +D ++T+
Sbjct: 40 FAVDEVEFYENDSALFDEIIAHRLAMIPLKTP--TDR--FELDALELD-------DYTVT 88
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ + V + DLKS D V PVT DI IVKL KGQ L AY
Sbjct: 89 LSLEAEGPGIVYSGDLKSDDPDVKPVTP--------------DIPIVKLAKGQRLVFNAY 134
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPK--------------SEYSE 166
AK G GK+HAKW P F Y + H + K + W K +E
Sbjct: 135 AKLGRGKDHAKWQP----GFTYYKYFTRVH-ISKKINGWEKLAKLAKKRGLPTKENEEEV 189
Query: 167 LDET-----------QHEAPYNW-EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSN 214
+ ET ++E W E P+ Y F VE+ G L E IV + + +L +K
Sbjct: 190 IVETIKPFYIPKEFEEYEGKEIWEEIVPDTYVFVVETNGELPVEEIVKIALRILMRKADR 249
Query: 215 LQTQL 219
+L
Sbjct: 250 FINEL 254
>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 = 72.8 bits (177), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 73/248 (29%), Positives = 103/248 (41%), Gaps = 62/248 (25%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
A+D V+ N + L DE IA R+ +IPL + VDR + D +D ++T+
Sbjct: 40 FAVDEVEFYENDSALFDEIIAHRLAMIPLKTP--VDR--FELDALELD-------DYTVT 88
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ + V + DLKS D V P DI IVKL KGQ L A+
Sbjct: 89 LSLEAEGPGIVYSGDLKSDDPDVKPANP--------------DIPIVKLAKGQRLVFNAF 134
Query: 121 AKKGFGKEHAKWNP----------------------------TAGVCFEYDPDNSMRHTL 152
AK G GK+HAKW P G+ + + + + T+
Sbjct: 135 AKLGRGKDHAKWQPGFTYYKYFTRIHISKEIEGWEKLKKLAKKRGLPVKENENEVIVETI 194
Query: 153 FPKPDEWPKSEYSELDETQHEAPYNW-EAKPNKYFFNVESAGALKPENIVIMGVTVLKQK 211
KP PK E+ E +E W E PN Y F VE+ G L E IV + + +L +K
Sbjct: 195 --KPFYIPK-EFEE-----YEGKGIWEEIVPNTYVFVVETNGELPVEEIVKIALKILMRK 246
Query: 212 LSNLQTQL 219
+L
Sbjct: 247 ADRFINEL 254
>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 = 72.4 bits (176), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 119/271 (43%), Gaps = 59/271 (21%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCV--DFCSECSVEFT 58
+AI++V L N++VL DE +A R+ LIPL +D ++ L +C + C C V T
Sbjct: 41 LAIEYVNLYDNTSVLYDEQLALRLSLIPLATD--IETYLPQAECDVCGGEGCPACEVSLT 98
Query: 59 LDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLR 118
L + V + DL S+D ++ P AD N + IV+L+KGQ+L L
Sbjct: 99 LSA----EGPGTVYSRDLISSDPKIQP-------ADPN-------VPIVELKKGQKLVLE 140
Query: 119 AYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYNW 178
A A G+G++ KW AGV Y P D H A
Sbjct: 141 AIAHMGYGRDSVKWQ--AGVACGY--------------KNMPVITIENCDACGHCA---- 180
Query: 179 EAKPNKYFFNVESAGA-LKPENIVIMGVTVLKQKLSNLQTQLAHDRVFYVINEAPYNWEA 237
A+ K +VE AGA + E+I+ + L +++ ++ A FY
Sbjct: 181 -AECPKGIISVEEAGAKIAEEDIMKCSICRLCEQVCDIN---AIKVDFY----------- 225
Query: 238 KPNKYFFNVESAGALKPENIVIMGVTVLKQK 268
N + F +ES G+ +++V+ V+K K
Sbjct: 226 -ENSFVFTMESDGSYTAKDLVLNAANVIKGK 255
>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 = 72.4 bits (176), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 69/262 (26%), Positives = 118/262 (45%), Gaps = 46/262 (17%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVV----DRILYSRDCTCVDFCSECSVE 56
+A ++V + N++++ DE ++ RIGL+P+++D + L ++ T D+ + V
Sbjct: 84 LAFEFVYIINNTSIIQDEVLSHRIGLVPISADPDMFKWFQHPLPGQEATHTDYDT---VV 140
Query: 57 FTLDVKCV---------DDQTRHVTTADLKSTDARVVPVTSRN-RDADMNEYGETDDILI 106
F+L+ KC D R +++ S D P + R AD DI++
Sbjct: 141 FSLNKKCEFNKNAATDEKDPKRLYVNSEVYSGDLIWKPQGRQEERFADNPIRVVNPDIVV 200
Query: 107 VKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVCFEYDP-----------DNSMRHTLFPK 155
KLR GQE+ L A+A G G++HAK++P A + P D FPK
Sbjct: 201 AKLRPGQEIDLEAHAILGIGQDHAKFSPVATASYRLLPTIHILSPIEGEDAVKFQKCFPK 260
Query: 156 --------PDEWPKSEYSEL--DETQHEAPYNWEAKP--------NKYFFNVESAGALKP 197
PD ++ +++ D E + E + Y F+VES G +KP
Sbjct: 261 GVIELEEGPDGKKQARVADVRKDTVSRECLRHPEFADKVQLGRVRDHYLFSVESTGIMKP 320
Query: 198 ENIVIMGVTVLKQKLSNLQTQL 219
+ + I + VLK K +++ L
Sbjct: 321 DVLFIKSIAVLKSKCLAVKSSL 342
>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 = 72.4 bits (176), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 76/231 (32%), Positives = 102/231 (44%), Gaps = 32/231 (13%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
MAID V + N++V+ DEF+A R+GLIPLT+ + Y T V +EC L
Sbjct: 40 MAIDTVVVVNNTSVMYDEFLAQRLGLIPLTT-PLHSLPTYEECATGVADPTECGTRLVLQ 98
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V D T V + DL S VVPV DI IVKL KGQ + + AY
Sbjct: 99 VTADGDVT--VYSGDLTSERPDVVPVYK--------------DIPIVKLVKGQSIVIEAY 142
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDP-----DNSMRHT---LFPKPDEWPKSEYSEL----D 168
AK G K+HAKW A + Y P D R + P ++ K +++ D
Sbjct: 143 AKLGIAKDHAKWQ-AATASYYYYPKVIIKDEKCREICKEICPDLEDPVKCTFNKAWTCKD 201
Query: 169 ETQHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQL 219
+ WE NKY F VES G + + +LK+K +L
Sbjct: 202 LCKGGLDVEWEK--NKYVFWVESFGNYGVDVALKEAFRILKRKFEAFTEEL 250
>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 = 71.6 bits (174), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 79/278 (28%), Positives = 117/278 (42%), Gaps = 57/278 (20%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCV--DFCSECSVEFT 58
+AI++V L N++VL DE +A R+ LIPL +D ++ + +C + C C V T
Sbjct: 41 LAIEYVNLYDNTSVLYDEQLALRLSLIPLVTD--IETYMPQAECEVCGGEGCPACEVSLT 98
Query: 59 LDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLR 118
L + V + DL S+D ++ P AD N I IV+L+KGQ+L L
Sbjct: 99 LSA----EGPGTVYSRDLISSDPKIQP-------ADPN-------IPIVELKKGQKLVLE 140
Query: 119 AYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHEAPYNW 178
A A G+G++ KW AGV Y P D H A
Sbjct: 141 AIAHMGYGRDSVKWQ--AGVACGY--------------KNVPVITIENCDACGHCA---- 180
Query: 179 EAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAHDRVFYVINEAPYNWEAK 238
A+ K VE AGA E+ ++K L L Q+ IN ++
Sbjct: 181 -AECPKGIIRVEEAGARIAED------DLIKCSLCRLCEQVCD------INAIKVDF--Y 225
Query: 239 PNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQL 276
N + F +ES G+ +++ I V+K K L L
Sbjct: 226 ENAFVFTMESDGSYTAKDLTINAANVIKGKAEELLAIL 263
>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 = 71.2 bits (173), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 70/262 (26%), Positives = 111/262 (42%), Gaps = 51/262 (19%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
MA++ V + N++++ DE +A R+GLIP+ +D R+ R+ +++F L
Sbjct: 87 MAVEKVLVYNNTSIVQDEILAHRLGLIPIHADP---RLFEYRNQGDEGGTEIDTLQFRLQ 143
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSR-----------NRDADMNEYGET----DDIL 105
V+C TR+ A S+D + V R AD+ G DDIL
Sbjct: 144 VRC----TRNPHAAK-DSSDPNELYVNHRVYTRHMTWVPLGNQADLFPEGAIRPVHDDIL 198
Query: 106 IVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYS 165
I +LR GQE+ L + KG GK+HAK++P A + PD ++ + + E +S
Sbjct: 199 IAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDITLLEPVEGEAAEELSRCFS 258
Query: 166 --------------------ELDETQHEAPYNWEAKP--------NKYFFNVESAGALKP 197
LD E N + K + + F+VES G L P
Sbjct: 259 PGVIEVQEIQGKKVARVANPRLDTFSREVFRNEKLKKVVRLARVRDHFIFSVESTGVLPP 318
Query: 198 ENIVIMGVTVLKQKLSNLQTQL 219
+ +V + VL K +L
Sbjct: 319 DVLVSEAIKVLMGKCQRFLDEL 340
>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 = 71.2 bits (173), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 70/262 (26%), Positives = 112/262 (42%), Gaps = 51/262 (19%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
MA++ V + N++++ DE +A R+GLIP+ +D R+ R+ + +++F L
Sbjct: 87 MAVEKVLVYNNTSIVQDEILAHRLGLIPIHADP---RLFEYRNQGDEEGTEIDTLQFRLQ 143
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSR-----------NRDADMNEYGET----DDIL 105
V+C TR+ A S+D + V + AD+ G DDIL
Sbjct: 144 VRC----TRNPHAAK-DSSDPNELYVNHKVYTRHMTWIPLGNQADLFPEGTIRPVHDDIL 198
Query: 106 IVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYS 165
I +LR GQE+ L + KG GK+HAK++P A + PD ++ + + E +S
Sbjct: 199 IAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDITLLEPVEGEAAEELSRCFS 258
Query: 166 --------------------ELDETQHEAPYNWEAKP--------NKYFFNVESAGALKP 197
LD E N + K + Y F+VES G L P
Sbjct: 259 PGVIEVQEVQGKKVARVANPRLDTFSREIFRNEKLKKVVRLARVRDHYIFSVESTGVLPP 318
Query: 198 ENIVIMGVTVLKQKLSNLQTQL 219
+ +V + VL K +L
Sbjct: 319 DVLVSEAIKVLMGKCRRFLDEL 340
>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 = 70.9 bits (172), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 75/146 (51%), Gaps = 21/146 (14%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCV-DFCSECSVEFTL 59
MA+D+V + NS+ DE IA R+ ++P+ + +DR +C+C + C C + F L
Sbjct: 41 MAVDYVDIYLNSSYFYDEVIAHRLAMLPIKT--YLDRFNMQSECSCGGEGCPNCQISFRL 98
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+V + + V + D S D VV D+I +++L +GQ+L L A
Sbjct: 99 NV----EGPKVVYSGDFISDDPDVV--------------FAIDNIPVLELFEGQQLMLEA 140
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPD 145
A+ G G+EHAK+ P + ++ P+
Sbjct: 141 VARLGTGREHAKFQPVSVCVYKIIPE 166
>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 = 69.3 bits (168), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 69/244 (28%), Positives = 102/244 (41%), Gaps = 54/244 (22%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
A+D V+ N + L DE IA R+ +IPLT+ +R +S D +D ++T+
Sbjct: 40 FAVDEVEFLENDSALFDEIIAHRLAMIPLTTPH--ER--FSLDALELD-------DYTVT 88
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ + V + DLKS+D V P +I IVKL +GQ L AY
Sbjct: 89 LSLEAEGPGMVYSGDLKSSDGDVKPANP--------------NIPIVKLAEGQRLTFNAY 134
Query: 121 AKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSE-----LDETQHEA- 174
A+ G GK+HAKW P F Y + H PD E +E ++E+ E
Sbjct: 135 ARLGRGKDHAKWQP----GFVYYKYLTKIHVSKDVPDWEELKELAERRGLPVEESDEEIV 190
Query: 175 ---------PYNWEAK----------PNKYFFNVESAGALKPENIVIMGVTVLKQKLSNL 215
P +E P + F VE+ G L E IV + + +L +K
Sbjct: 191 ITTIKAFYLPRKFEEHMGKGIREEIVPGSFVFTVETNGELPVEEIVSIALKILMRKSDRF 250
Query: 216 QTQL 219
+L
Sbjct: 251 INEL 254
>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 = 68.6 bits (166), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 63/245 (25%), Positives = 108/245 (44%), Gaps = 56/245 (22%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTS--DEVVDRILYSRDCTCVDFCSECSVEFT 58
+AI+ V + N + + +E +A R+GL PL S D + L D D+ SV F+
Sbjct: 39 IAIEDVNIMRNDSAMFNEVLAHRLGLTPLVSNMDAIEGLPLPGDD----DYEENNSVMFS 94
Query: 59 LDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLR 118
L ++ + V + DL S+D+++ PV D I +VKL++G++L +
Sbjct: 95 LK----EEGPKVVYSKDLISSDSKIKPVY--------------DTIPLVKLKEGEKLNIE 136
Query: 119 AYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTL---FPKPDEWPKS---------EYSE 166
A AK G+GKEHAKW PT ++ P+ + + + D P+ E
Sbjct: 137 AVAKVGYGKEHAKWMPTTVCVYKQYPEITFNEDVGIDYECADACPRGVLKSDKRSKEIKI 196
Query: 167 LD--------------------ETQHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVT 206
LD E + E+ N N + F +E+ G++ P+ +++
Sbjct: 197 LDIEDCAMCKSCVRASIRNAQSEGKDESYINVGYHENDFIFRIETDGSMPPKEVLLQACD 256
Query: 207 VLKQK 211
L +K
Sbjct: 257 ELGEK 261
>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 = 67.8 bits (164), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 68/262 (25%), Positives = 112/262 (42%), Gaps = 51/262 (19%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
MA++ V + N++++ DE +A R+GLIP+ +D R+ R+ + +++F L
Sbjct: 87 MAVEKVLVYNNTSIVQDEILAHRLGLIPILADP---RLFEYRNQGEEEGTEIDTLQFRLQ 143
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSR-----------NRDADMNEYGET----DDIL 105
V+C TR+ A S+D + V + AD+ G DDIL
Sbjct: 144 VRC----TRNPNAAK-DSSDPNELYVNHKVYTRHMTWVPLGNQADVFPEGTIRPVHDDIL 198
Query: 106 IVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYS 165
I +LR GQE+ L + KG GK+HAK++P A + P ++ + + E +S
Sbjct: 199 IAQLRPGQEIDLMMHCVKGIGKDHAKFSPVATASYRLLPAITLLEPVEGEAAEELSQCFS 258
Query: 166 ----ELDETQ---------------------HE---APYNWEAKPNKYFFNVESAGALKP 197
E++E Q HE + Y F+VES G L P
Sbjct: 259 PGVIEVEEVQGKKVARVANARLDTFSREIFRHEKLKKAVRLARVRDHYIFSVESTGVLPP 318
Query: 198 ENIVIMGVTVLKQKLSNLQTQL 219
+ +V + +L K +L
Sbjct: 319 DVLVSEAIKILMGKCRRFLDEL 340
>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 = 67.8 bits (164), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 65/241 (26%), Positives = 102/241 (42%), Gaps = 35/241 (14%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
MAI+ V + N+++L DE +A R+G+IP+ VD ++ ++ +E ++ F L
Sbjct: 97 MAIEKVYIINNTSILQDEVLAHRLGMIPIK----VDPRKFNFKLPNKEYTAEDTLIFQLK 152
Query: 61 VKCVDDQ-TRHVTTADLKSTDARVVPVTSRNRDADMNEYGE----TDDILIVKLRKGQEL 115
VKC D T + S VP T + NE DDI I+KLR GQ +
Sbjct: 153 VKCEKDSVTGKIINETALSKHLIWVP-TQDQEEMFPNEEDRPRPMEDDIPIMKLRPGQVI 211
Query: 116 RLRAYAKKGFGKEHAKWNPTAGVCFEYDP----DNSMR------------HTLFPKPDEW 159
++ Y +K G+EH KW+P + P D S++ +F D
Sbjct: 212 DIQCYCEKNIGREHIKWSPVCTASYRLQPVISVDKSIKGDKANQLLEKCPKKVFDIEDSG 271
Query: 160 PKSEYSELDET---------QHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQ 210
LD T + E E + + F++ES GALK I + + +
Sbjct: 272 QVVAARPLDCTMCRECIRDPEFEQNVKIERVRDHFIFSIESTGALKSREIFQEAIKIFIE 331
Query: 211 K 211
K
Sbjct: 332 K 332
>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 = 66.2 bits (160), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 63/233 (27%), Positives = 110/233 (47%), Gaps = 43/233 (18%)
Query: 11 NSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTC-VDFCSECSVEFTLDVKCVDDQTR 69
+S L DE +A R+GLIPL +D ++ + C+C + C C+V+++++
Sbjct: 60 SSLPLFDEVVALRLGLIPLKTDL---KMNFRDQCSCNGEGCDLCTVKYSIN--------- 107
Query: 70 HVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAYAKKGFGKEH 129
+ AD+ S+D ++P+ + D+ I IVKL+KGQ + + A G GK+H
Sbjct: 108 KLGPADVFSSD--LIPIN----NPDLKPVDPM--IPIVKLKKGQAMLVTCEAIMGRGKDH 159
Query: 130 AKWNPTAGVCFEYDPD-----NSMRHTLFPKPDEWPKSEYSE-------LDETQ------ 171
AKW T+GV ++Y + N + + F K D+ PKS SE D+ +
Sbjct: 160 AKWQVTSGVSYKYHREFKINKNELENWSFYK-DKCPKSVISENENEITFTDDVECRYLQQ 218
Query: 172 ---HEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
++ K+ F E+ G+L + + LK++ +NL L+
Sbjct: 219 LFDEKSGVTITEDDTKFIFQFETDGSLTAIETLDYALKRLKERFNNLMESLSE 271
>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 = 65.1 bits (157), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 58/243 (23%), Positives = 99/243 (40%), Gaps = 43/243 (17%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVD-FCSECSVEFTL 59
+ I+ V + N T + DE +A R+GLIPL D++ D+ C C C +C V L
Sbjct: 45 LRIEEVIIYENDTPMYDEMLAHRLGLIPLRVDDI-DQFELPDLCDCGGKGCEKCQVRAEL 103
Query: 60 DVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRA 119
+V + V DLK V P D LI ++ + Q +RL
Sbjct: 104 EV----EGPTKVYARDLKFDHPDVEPAFP--------------DTLITEVGEDQRIRLEV 145
Query: 120 YAKKGFGKEHAKWNPTAGVCFEYDPDNSM-------RHTLFPKP---------------- 156
A G G EHAKW P + V ++ P+ + + + P
Sbjct: 146 IAVPGLGLEHAKWKPVSAVGYKGLPELEIDEDKLKEKKITYECPQGIIRIENGEVVHIDE 205
Query: 157 DEWPKSEYSELDETQHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 216
D P+ + E + + + + + FNVE+ G++ + ++ + ++ KL +L+
Sbjct: 206 DRLPECRMYKEYERETDGAVRVRLRDDAFVFNVETDGSMSLDTAILKALDAIEHKLESLK 265
Query: 217 TQL 219
L
Sbjct: 266 KNL 268
>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 = 62.4 bits (150), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 68/239 (28%), Positives = 100/239 (41%), Gaps = 44/239 (18%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFC-------SEC 53
+AID V + N++V+ DE +A R+GLIPLT+ +D ++ C SEC
Sbjct: 40 LAIDSVVVVNNTSVMYDEMLAHRLGLIPLTTP--------LKDLPPIEDCESGLVDPSEC 91
Query: 54 SVEFTLDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQ 113
+V TL V D V DL + V PV DI IVKL +GQ
Sbjct: 92 TVRLTLQVNATGDVV--VYAGDLVADRPDVAPVYK--------------DIPIVKLVEGQ 135
Query: 114 ELRLRAYAKKGFGKEHAKWNPTAGVCFEYDPDNSMRHTLFPKPDEWPKSEYSELDETQHE 173
+ + AYAK G ++HAKW + Y R E ++ + L+ T ++
Sbjct: 136 SVVVEAYAKLGRARDHAKWQAALASYYYYPKVVVKREECREMCKEVCRNLENPLECTFNK 195
Query: 174 AP-----------YNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLAH 221
A WE +KY F +ES G E + +LK+K + L+
Sbjct: 196 ATTCKEMCGGGIVVEWEK--DKYVFWIESFGNYDAETALREAFRILKKKFEDFLDALSR 252
>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 = 61.6 bits (148), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 61/236 (25%), Positives = 100/236 (42%), Gaps = 48/236 (20%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
++ID +++ NS+V+ DE +A R+GL+PLT T D+ +V +D
Sbjct: 43 LSIDTLRVVENSSVMFDEQLALRLGLVPLT--------------TPDDYEPGETVTLAID 88
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V+ + DL S+D +V P AD N I I++L+ Q+L L A
Sbjct: 89 VEG----PATAYSGDLVSSDDKVQP-------ADEN-------IPIIELKDDQQLELEAD 130
Query: 121 AKKGFGKEHAKWNPTAGVC---------------FEYDPDNSMRHTLFPKPDEWPKSEY- 164
A G GK+HAK V FE D +R + D E+
Sbjct: 131 ATLGRGKDHAKHQGGVAVGYRHLQRVEVVGEKGEFEDDEPEILRGVIEEDGDLIETGEFD 190
Query: 165 SELDETQHEAPYNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQTQLA 220
++L + E PN + F+VE+ G++ E +V+ + + L+ +A
Sbjct: 191 NDLSQRYPGKEVEVEEVPNAFVFDVETDGSMPVEELVLKAAESIAARADELEEAVA 246
>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 = 59.7 bits (143), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 52/169 (30%), Positives = 81/169 (47%), Gaps = 33/169 (19%)
Query: 11 NSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVD-FCSECSVEFTLDVKCVDDQTR 69
+S L DE +A R+GLIPL +D ++ + C+C CS C+V ++++
Sbjct: 61 SSLPLFDEMVAHRLGLIPLKTDLSLN---FRDQCSCGGKGCSLCTVTYSIN----KIGPA 113
Query: 70 HVTTADLKS-TDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAYAKKGFGKE 128
V + D+++ + +VPV DI IVKL Q + + A A G KE
Sbjct: 114 SVMSGDIQAISHPDLVPVDP--------------DIPIVKLGAKQAILITAEAILGTAKE 159
Query: 129 HAKWNPTAGVCFEYDPDNSMRHTLFPKPDEW-------PKSEYSELDET 170
HAKW T+GV ++Y + + LF ++W PKS SE + T
Sbjct: 160 HAKWQVTSGVAYKYHREFEVNKKLF---EDWAKIKERCPKSVLSEDENT 205
>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 = 58.9 bits (141), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 60/232 (25%), Positives = 95/232 (40%), Gaps = 48/232 (20%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
++ID V+ NS+V+ DE + R+GL+PLT+ E D+ + +V LD
Sbjct: 44 LSIDTVRFVENSSVMFDEQLGLRLGLVPLTTPE--------------DYAAGEAVTLALD 89
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V+ + DL S D V AD N I I++L+ Q L L A
Sbjct: 90 VEG----PGTAYSGDLVSNDPEV-------EAADEN-------IPIIELKDDQRLELEAD 131
Query: 121 AKKGFGKEHAKWNPTAGVCFEY--------------DPDNSMRHTLFPKPDEW-PKSEYS 165
A G G++HAK V + + D D M + + DE P ++
Sbjct: 132 AVMGHGRDHAKHQGGVAVGYRHLQRVHVVGDSPEYADDDPQMLRGVIEEDDELVPTDDFD 191
Query: 166 ELDETQHEAP-YNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 216
T++ E + F+VES G++ E +V+ V L + L+
Sbjct: 192 NDLTTRYPGKEVEIEDVDGAFVFHVESDGSMPVEELVLRAVDTLVDRADELE 243
>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 = 58.9 bits (141), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 60/232 (25%), Positives = 95/232 (40%), Gaps = 48/232 (20%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
++ID V+ NS+V+ DE + R+GL+PLT+ E D+ + +V LD
Sbjct: 44 LSIDTVRFVENSSVMFDEQLGLRLGLVPLTTPE--------------DYAAGEAVTLALD 89
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
V+ + DL S D V AD N I I++L+ Q L L A
Sbjct: 90 VEG----PGTAYSGDLVSNDPEV-------EAADEN-------IPIIELKDDQRLELEAD 131
Query: 121 AKKGFGKEHAKWNPTAGVCFEY--------------DPDNSMRHTLFPKPDEW-PKSEYS 165
A G G++HAK V + + D D M + + DE P ++
Sbjct: 132 AVMGHGRDHAKHQGGVAVGYRHLQRVHVVGDSPEYADDDPQMLRGVIEEDDELVPTDDFD 191
Query: 166 ELDETQHEAP-YNWEAKPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQ 216
T++ E + F+VES G++ E +V+ V L + L+
Sbjct: 192 NDLTTRYPGKEVEIEDVDGAFVFHVESDGSMPVEELVLRAVDTLVDRADELE 243
>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 = 58.2 bits (139), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 64/243 (26%), Positives = 100/243 (41%), Gaps = 58/243 (23%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
+ID V++ N++V+ +E I R+GL+PLT+D DF E E TL
Sbjct: 43 FSIDTVRVIENTSVMFNEQIGLRLGLVPLTTD-------------LDDF--EIGDEVTLS 87
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ D ++DL S+D V AD D+I I+ L++GQ L + A
Sbjct: 88 LSV--DGPSTAYSSDLVSSDPMV-------EAAD-------DNIPIIDLKEGQRLEVEAD 131
Query: 121 AKKGFGKEHAKWNPTAGVC---------------FEYDPDNSMRHTLFPKPDEWP----- 160
A G+EHAK V FE D N +R + + E
Sbjct: 132 AVLDTGREHAKHQGGVAVGYRHLQQVEVVGDLGEFEDDDPNILRGVIEEQAAEHAAGDAT 191
Query: 161 KSEYSELDETQHEAPYNWEAK-------PNKYFFNVESAGALKPENIVIMGVTVLKQKLS 213
E DE ++ + K PN + F+VE+ G+ E +V+ V L+ + +
Sbjct: 192 NGELVATDEFDNDLRNRYPGKDVEVSDVPNAFVFHVETDGSFTTEELVLRAVETLRDRAT 251
Query: 214 NLQ 216
L+
Sbjct: 252 ELK 254
>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 = 55.8 bits (133), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 50/167 (29%), Positives = 80/167 (47%), Gaps = 33/167 (19%)
Query: 11 NSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVD-FCSECSVEFTLDVKCVDDQTR 69
+S L DE +A R+GLIPL +D ++ + C+C CS C+V ++++
Sbjct: 61 SSLPLFDEMVAHRLGLIPLKTDLTMN---FRDQCSCGGKGCSLCTVTYSINKL----GPS 113
Query: 70 HVTTADLKS-TDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAYAKKGFGKE 128
V ++DL++ + ++PV +I IVKL Q + + A A G KE
Sbjct: 114 TVFSSDLQAVSHPDLIPVDG--------------EIPIVKLGPKQAILITAEAILGTAKE 159
Query: 129 HAKWNPTAGVCFEYDPDNSMRHTLFPKPDEW-------PKSEYSELD 168
HAKW T+GV ++Y + + F ++W PKS SE D
Sbjct: 160 HAKWQVTSGVSYKYHREFHVSKKDF---EDWQKLKGACPKSVMSETD 203
>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 = 51.6 bits (122), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 40/138 (28%), Positives = 61/138 (44%), Gaps = 35/138 (25%)
Query: 1 MAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFTLD 60
AI+ V + NS+ + DE +A R+GLIP+ +++ + + FTL+
Sbjct: 41 FAIEDVYIYENSSSMDDEILAHRLGLIPIKGKPLLENEV---------------ITFTLE 85
Query: 61 VKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLRAY 120
+ V ++DLKS + V +I IVKL KGQ +++
Sbjct: 86 ----KEGPCTVYSSDLKSENGEVA----------------FKNIPIVKLGKGQRIQIECE 125
Query: 121 AKKGFGKEHAKWNPTAGV 138
A G GK HAKW P V
Sbjct: 126 AIPGIGKVHAKWQPCNAV 143
>sp|B6IRT0|RPOA_RHOCS DNA-directed RNA polymerase subunit alpha OS=Rhodospirillum
centenum (strain ATCC 51521 / SW) GN=rpoA PE=3 SV=1
Length = 338
Score = 37.4 bits (85), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 12/100 (12%)
Query: 183 NKYFFNVESAGALKPENIVIMGVTVLKQKLSNL------QTQLAHDRVFYVINEAPYNWE 236
+K NVE+ GA+ PE+ V + +L+ +L Q +A + +E P+N
Sbjct: 198 DKLLLNVETNGAVSPEDAVAIAARILQDQLQMFINFEEPQAAVAETKA----DEIPFNKN 253
Query: 237 A--KPNKYFFNVESAGALKPENIVIMGVTVLKQKLSNLQT 274
K ++ +V SA LK +NIV +G V K + L+T
Sbjct: 254 LLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEAEMLRT 293
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
0.317 0.132 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 106,388,462
Number of Sequences: 539616
Number of extensions: 4377186
Number of successful extensions: 10317
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 65
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 10103
Number of HSP's gapped (non-prelim): 173
length of query: 287
length of database: 191,569,459
effective HSP length: 116
effective length of query: 171
effective length of database: 128,974,003
effective search space: 22054554513
effective search space used: 22054554513
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.7 bits)