RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17644
(330 letters)
>gnl|CDD|238167 cd00268, DEADc, DEAD-box helicases. A diverse family of proteins
involved in ATP-dependent RNA unwinding, needed in a
variety of cellular processes including splicing,
ribosome biogenesis and RNA degradation. The name
derives from the sequence of the Walker B motif (motif
II). This domain contains the ATP- binding region.
Length = 203
Score = 236 bits (604), Expect = 9e-78
Identities = 80/162 (49%), Positives = 105/162 (64%), Gaps = 3/162 (1%)
Query: 169 FGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVH 228
F G L++ + + PTPIQA+A+P LSGRD+IG A+TGSGKT AF+ P+L
Sbjct: 1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEK 60
Query: 229 IMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALE 288
+ + DGP LILAPTREL+ QI A++ GK NL VV YGG S Q + L+
Sbjct: 61 LDPSPKK---DGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK 117
Query: 289 LGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
G IVV TPGR++D+++ G L++V +LVLDEADRM DMG
Sbjct: 118 RGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMG 159
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 246 bits (629), Expect = 2e-77
Identities = 105/220 (47%), Positives = 142/220 (64%), Gaps = 1/220 (0%)
Query: 112 DPLPPIDHSTIVYEEVEKNFYQPHEDIARLTPQEAQELRAKSGIT-VSGADPPYPVSSFG 170
L PID +I EKNFY+ H +++ L+ +E E+R + IT ++G + P PV SF
Sbjct: 74 KRLQPIDWKSINLVPFEKNFYKEHPEVSALSSKEVDEIRKEKEITIIAGENVPKPVVSFE 133
Query: 171 HFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIM 230
+ F + ++K+L+ +T PTPIQ Q P ALSGRD+IG+A+TGSGKT AF+ P +VHI
Sbjct: 134 YTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHIN 193
Query: 231 DQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELG 290
Q L GDGP+ L+LAPTREL++QI + +FG + YGG K Q AL G
Sbjct: 194 AQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRG 253
Query: 291 AEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
EI++ PGR+ID ++ T L RVT+LVLDEADRM DMG
Sbjct: 254 VEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMG 293
>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
replication, recombination, and repair / Transcription /
Translation, ribosomal structure and biogenesis].
Length = 513
Score = 216 bits (553), Expect = 1e-66
Identities = 77/177 (43%), Positives = 102/177 (57%), Gaps = 4/177 (2%)
Query: 155 ITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTG 214
F G L++AL+ + PTPIQ A+P L+GRD++G A+TG
Sbjct: 17 NVALSRGEEKTPPEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTG 76
Query: 215 SGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKG-YNLSVVC 273
+GKT AF+ P+L I+ E + LILAPTREL+ QI E ++ GK L V
Sbjct: 77 TGKTAAFLLPLLQKILKSVERK---YVSALILAPTRELAVQIAEELRKLGKNLGGLRVAV 133
Query: 274 CYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
YGG S Q +AL+ G +IVV TPGR++D++K G L+ V LVLDEADRM DMG
Sbjct: 134 VYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMG 190
>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 169
Score = 174 bits (444), Expect = 3e-54
Identities = 71/142 (50%), Positives = 97/142 (68%), Gaps = 7/142 (4%)
Query: 191 TPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTR 250
TPIQAQA+PA LSG+D++ A TGSGKT AF+ P+L ++ +K GP L+LAPTR
Sbjct: 1 TPIQAQAIPAILSGKDVLVQAPTGSGKTLAFLLPILQALLPKK-----GGPQALVLAPTR 55
Query: 251 ELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELG-AEIVVGTPGRIIDMVKMGA 309
EL++QIY E K+ K L V GG S +Q++ L+ G A+I+VGTPGR++D+++ G
Sbjct: 56 ELAEQIYEELKKLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRLLDLLRRGK 115
Query: 310 TKL-NRVTFLVLDEADRMFDMG 330
KL + LVLDEA R+ DMG
Sbjct: 116 LKLLKNLKLLVLDEAHRLLDMG 137
>gnl|CDD|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase;
Provisional.
Length = 518
Score = 153 bits (387), Expect = 2e-42
Identities = 76/193 (39%), Positives = 108/193 (55%), Gaps = 2/193 (1%)
Query: 140 RLTPQEAQELRAKSGITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVP 199
L+ +A+ LR K I V G P P+ SF G L+ L Y PTPIQ QA+P
Sbjct: 94 GLSSSQAELLRRKLEIHVKGEAVPPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIP 153
Query: 200 AALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGD--GPMGLILAPTRELSQQIY 257
AALSGR ++ A TGSGKT +F+ P++ + P + P+ ++L PTREL Q+
Sbjct: 154 AALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVE 213
Query: 258 NEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTF 317
++AK GKG GG + Q ++ G E++VGTPGR+ID++ +L+ V+
Sbjct: 214 DQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIELDNVSV 273
Query: 318 LVLDEADRMFDMG 330
LVLDE D M + G
Sbjct: 274 LVLDEVDCMLERG 286
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 150 bits (382), Expect = 4e-42
Identities = 69/162 (42%), Positives = 97/162 (59%), Gaps = 1/162 (0%)
Query: 169 FGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVH 228
F DE L++AL+ YT PT IQA+A+P AL GRD++G A TG+GKT AF+ P L H
Sbjct: 3 FSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQH 62
Query: 229 IMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALE 288
++D + G P LIL PTREL+ Q+ ++A+ K +L + GG + + ++
Sbjct: 63 LLDFPRRKSGP-PRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFS 121
Query: 289 LGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+IVV TPGR++ +K V L+LDEADRM DMG
Sbjct: 122 ENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMG 163
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 143 bits (363), Expect = 7e-42
Identities = 62/151 (41%), Positives = 86/151 (56%), Gaps = 8/151 (5%)
Query: 182 LRKCEYTSPTPIQAQAVPAALSG-RDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDG 240
+ K + P Q +A+ A LSG RD+I A TGSGKT A + P L + G G
Sbjct: 1 IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALK------RGKG 54
Query: 241 PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELG-AEIVVGTPG 299
L+L PTREL++Q E K+ G L VV YGG SK +Q + LE G +I+V TPG
Sbjct: 55 GRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPG 114
Query: 300 RIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
R++D+++ L+ V ++LDEA R+ D G
Sbjct: 115 RLLDLLENDKLSLSNVDLVILDEAHRLLDGG 145
>gnl|CDD|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional.
Length = 460
Score = 148 bits (377), Expect = 3e-41
Identities = 69/145 (47%), Positives = 90/145 (62%), Gaps = 6/145 (4%)
Query: 187 YTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLIL 246
YT TPIQAQ++PA L+G+D+I AKTGSGKT AF +L + D K L+L
Sbjct: 24 YTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKL-DVKRF----RVQALVL 78
Query: 247 APTRELSQQIYNEAKRFGKG-YNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMV 305
PTREL+ Q+ E +R + N+ V+ GG Q +LE GA I+VGTPGRI+D +
Sbjct: 79 CPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHL 138
Query: 306 KMGATKLNRVTFLVLDEADRMFDMG 330
+ G L+ + LVLDEADRM DMG
Sbjct: 139 RKGTLDLDALNTLVLDEADRMLDMG 163
>gnl|CDD|235314 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional.
Length = 423
Score = 147 bits (372), Expect = 9e-41
Identities = 67/164 (40%), Positives = 96/164 (58%), Gaps = 2/164 (1%)
Query: 169 FGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVH 228
F F +++AL K + + TPIQA A+P L+GRD+ G A+TG+GKT AF+ +
Sbjct: 10 FSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHY 69
Query: 229 IMDQKELEPG--DGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKA 286
++ E + P LI+APTREL+ QI+ +A+ + L + YGG Q K
Sbjct: 70 LLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKV 129
Query: 287 LELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
LE G +I++GT GR+ID K L + +VLDEADRMFD+G
Sbjct: 130 LESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLG 173
>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional.
Length = 456
Score = 139 bits (353), Expect = 7e-38
Identities = 70/164 (42%), Positives = 100/164 (60%), Gaps = 1/164 (0%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
SF G +++A+ + Y PTPIQ QA+PA L GRD++ A+TG+GKT F P+L
Sbjct: 2 SFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQ 61
Query: 228 HIMDQKELEPGDGPM-GLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKA 286
H++ ++ G P+ LIL PTREL+ QI + + K N+ + +GG S Q
Sbjct: 62 HLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMK 121
Query: 287 LELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L G +++V TPGR++D+ A KL++V LVLDEADRM DMG
Sbjct: 122 LRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMG 165
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 127 bits (321), Expect = 3e-36
Identities = 48/126 (38%), Positives = 67/126 (53%), Gaps = 7/126 (5%)
Query: 205 RDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFG 264
RD++ A TGSGKT A + P+L L+ G L+LAPTREL+ Q+ K
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILEL------LDSLKGGQVLVLAPTRELANQVAERLKELF 54
Query: 265 KGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEAD 324
+ V GG S Q K L +IVVGTPGR++D ++ L ++ L+LDEA
Sbjct: 55 G-EGIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAH 113
Query: 325 RMFDMG 330
R+ + G
Sbjct: 114 RLLNQG 119
>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
Length = 629
Score = 136 bits (345), Expect = 4e-36
Identities = 73/166 (43%), Positives = 106/166 (63%), Gaps = 8/166 (4%)
Query: 167 SSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPML 226
++F G +++AL Y P+PIQA+ +P L+GRD++G+A+TGSGKT AF P+L
Sbjct: 6 TTFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLL 65
Query: 227 VHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKG-YNLSVVCCYGGGSKWD-QS 284
++ EL+ P L+LAPTREL+ Q+ F K ++VV Y GG ++D Q
Sbjct: 66 HNL--DPELK---APQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALY-GGQRYDVQL 119
Query: 285 KALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+AL G +IVVGTPGR++D +K G L++++ LVLDEAD M MG
Sbjct: 120 RALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMG 165
>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 129 bits (325), Expect = 2e-33
Identities = 72/178 (40%), Positives = 97/178 (54%), Gaps = 11/178 (6%)
Query: 160 ADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTG 219
+D P +F F L+ L +T TPIQA +P AL G D+ G A+TG+GKT
Sbjct: 2 SDKPLTDLTFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTL 61
Query: 220 AFIWPMLVHIMDQKELEPG------DGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVC 273
AF LV +M++ P + P LILAPTREL+ QI+ +A +FG L
Sbjct: 62 AF----LVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFAL 117
Query: 274 CYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKM-GATKLNRVTFLVLDEADRMFDMG 330
YGG Q + L+ G ++++ TPGR+ID VK L+ VLDEADRMFD+G
Sbjct: 118 VYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLG 175
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 122 bits (308), Expect = 2e-31
Identities = 72/174 (41%), Positives = 93/174 (53%), Gaps = 5/174 (2%)
Query: 161 DPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGA 220
+P + F F LM A+ + TPIQAQ + L+G D IG A+TG+GKT A
Sbjct: 81 EPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAA 140
Query: 221 F---IWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGG 277
F I L+ KE G+ P LI+APTREL QI +A K L+V+ GG
Sbjct: 141 FLISIINQLLQTPPPKERYMGE-PRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGG 199
Query: 278 GSKWDQSKALELG-AEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
Q K LE +I+V TPGR++D + G L+ V +VLDEADRM DMG
Sbjct: 200 MDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMG 253
>gnl|CDD|185609 PTZ00424, PTZ00424, helicase 45; Provisional.
Length = 401
Score = 107 bits (268), Expect = 3e-26
Identities = 56/165 (33%), Positives = 82/165 (49%), Gaps = 5/165 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V SF +E L++ + + P+ IQ + + L G D IG A++G+GKT F+
Sbjct: 27 VDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAA 86
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
L ++D + LILAPTREL+QQI G + C GG D
Sbjct: 87 L-QLIDYDL----NACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDIN 141
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L+ G +VVGTPGR+ DM+ +++ + +LDEAD M G
Sbjct: 142 KLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRG 186
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 56.9 bits (138), Expect = 7e-09
Identities = 26/98 (26%), Positives = 50/98 (51%), Gaps = 1/98 (1%)
Query: 174 FDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQK 233
D + + ++ ++TS TP Q A+P SG +++ +A TGSGKT A P++ ++
Sbjct: 8 LDPRVREWFKR-KFTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLG 66
Query: 234 ELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSV 271
+ + DG L ++P + L+ I + + + V
Sbjct: 67 KGKLEDGIYALYISPLKALNNDIRRRLEEPLRELGIEV 104
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 54.3 bits (131), Expect = 5e-08
Identities = 31/143 (21%), Positives = 57/143 (39%), Gaps = 26/143 (18%)
Query: 194 QAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELS 253
Q A+ GR+++ TGSGKT +F+ P+L H++ L+L PT L+
Sbjct: 75 QVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSAR------ALLLYPTNALA 128
Query: 254 Q----QIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL-ELGAEIVVGTPGRIIDMVKMG 308
++ Y G + ++ +A+ +I++ P DM+
Sbjct: 129 NDQAERLRELISDLPGKVTFGR---YTGDTPPEERRAIIRNPPDILLTNP----DMLHYL 181
Query: 309 ATK--------LNRVTFLVLDEA 323
+ L + +LV+DE
Sbjct: 182 LLRNHDAWLWLLRNLKYLVVDEL 204
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 51.2 bits (123), Expect = 4e-07
Identities = 31/133 (23%), Positives = 56/133 (42%), Gaps = 12/133 (9%)
Query: 192 PIQAQAVPA-ALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTR 250
Q +AV LS +++ A TGSGKT ++ + L G G + I P +
Sbjct: 34 NPQQEAVEKGLLSDENVLISAPTGSGKT------LIALLAILSTLLEGGGKVVYI-VPLK 86
Query: 251 ELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGAT 310
L+++ Y E R + + V G D +++V TP ++ + + +
Sbjct: 87 ALAEEKYEEFSRL-EELGIRVG-ISTGDY--DLDDERLARYDVIVTTPEKLDSLTRKRPS 142
Query: 311 KLNRVTFLVLDEA 323
+ V +V+DE
Sbjct: 143 WIEEVDLVVIDEI 155
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 44.4 bits (105), Expect = 5e-05
Identities = 33/146 (22%), Positives = 51/146 (34%), Gaps = 31/146 (21%)
Query: 186 EYTSPTPIQAQAVPAALS----GRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGP 241
P Q +A+ A + R + V TG+GKT + EL
Sbjct: 33 FEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAA-----EAI--AEL----KR 81
Query: 242 MGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRI 301
L+L PT+EL Q K+F + + YGGG K A++ V T
Sbjct: 82 STLVLVPTKELLDQWAEALKKFLLLNDEIGI--YGGGEKE------LEPAKVTVAT---- 129
Query: 302 IDMV-KMGATKL---NRVTFLVLDEA 323
+ + + N ++ DE
Sbjct: 130 VQTLARRQLLDEFLGNEFGLIIFDEV 155
>gnl|CDD|234478 TIGR04121, DEXH_lig_assoc, DEXH box helicase, DNA
ligase-associated. Members of this protein family are
DEAD/DEAH box helicases found associated with a
bacterial ATP-dependent DNA ligase, part of a four-gene
system that occurs in about 12 % of prokaryotic
reference genomes. The actual motif in this family is
DE[VILW]H.
Length = 803
Score = 42.5 bits (101), Expect = 2e-04
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 189 SPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAP 248
+P P Q + AAL GR + +A TGSGKT A P L+ + + +P G L + P
Sbjct: 13 TPRPFQLEMWAAALEGRSGLLIAPTGSGKTLAGFLPSLIDLAGPE--KPKKGLHTLYITP 70
Query: 249 TRELSQQIYNEAKR 262
R L+ I +
Sbjct: 71 LRALAVDIARNLQA 84
>gnl|CDD|234365 TIGR03817, DECH_helic, helicase/secretion neighborhood putative
DEAH-box helicase. A conserved gene neighborhood widely
spread in the Actinobacteria contains this
uncharacterized DEAH-box family helicase encoded
convergently towards an operon of genes for protein
homologous to type II secretion and pilus formation
proteins. The context suggests that this helicase may
play a role in conjugal transfer of DNA.
Length = 742
Score = 38.6 bits (90), Expect = 0.004
Identities = 40/160 (25%), Positives = 64/160 (40%), Gaps = 24/160 (15%)
Query: 174 FDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQK 233
++ AL P QA+A A +GR ++ T SGK+ A+ P+L + D
Sbjct: 21 AHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADD- 79
Query: 234 ELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVV--CCYGGGSKWDQSKALELGA 291
L LAPT+ L+ + R + L V Y G + ++ + A
Sbjct: 80 -----PRATALYLAPTKALAA----DQLRAVRELTLRGVRPATYDGDTPTEERRWAREHA 130
Query: 292 EIVVGTPGRIIDMVKMG--------ATKLNRVTFLVLDEA 323
V+ P DM+ G A L R+ ++V+DE
Sbjct: 131 RYVLTNP----DMLHRGILPSHARWARFLRRLRYVVIDEC 166
>gnl|CDD|234468 TIGR04095, dnd_restrict_1, DNA phosphorothioation system
restriction enzyme. The DNA phosphorothioate
modification system dnd (DNA instability during
electrophoresis) recently has been shown to provide a
modification essential to a restriction system. This
protein family was detected by Partial Phylogenetic
Profiling as linked to dnd, and its members usually are
clustered with the dndABCDE genes.
Length = 451
Score = 37.7 bits (88), Expect = 0.006
Identities = 27/92 (29%), Positives = 42/92 (45%), Gaps = 13/92 (14%)
Query: 192 PIQAQAVPA--ALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPT 249
Q +A+ A +GR I+ +A TG+GKT + K E + L++ P
Sbjct: 11 DYQKEAIRAWFKNNGRGILKMA-TGTGKT------LTALAAASKLYEKIGLLVLLVVCPY 63
Query: 250 RELSQQIYNEAKRFGKGYNLSVVCCYGGGSKW 281
+ L Q EA++FG L+ + CY S W
Sbjct: 64 QHLVDQWAREAEKFG----LNPILCYESVSNW 91
>gnl|CDD|132384 TIGR03341, YhgI_GntY, IscR-regulated protein YhgI. IscR
(TIGR02010) is an iron-sulfur cluster-binding
transcriptional regulator (see Genome Property
GenProp0138). Members of this protein family include
YhgI, whose expression is under control of IscR, and
show sequence similarity to IscA, a known protein of
iron-sulfur cluster biosynthesis. These two lines of
evidence strongly suggest a role as an iron-sulfur
cluster biosynthesis protein. An older study designated
this protein GntY and suggested a role for it and for
the product of an adjacent gene, based on
complementation studies, in gluconate utilization
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 190
Score = 36.1 bits (84), Expect = 0.010
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 8/38 (21%)
Query: 37 GIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDEESYY 74
G++K + + + E+KG+RD DH E SYY
Sbjct: 161 GVEKTLLE--------RFPELKGVRDATDHTRGEHSYY 190
>gnl|CDD|233069 TIGR00643, recG, ATP-dependent DNA helicase RecG. [DNA metabolism,
DNA replication, recombination, and repair].
Length = 630
Score = 36.9 bits (86), Expect = 0.012
Identities = 40/163 (24%), Positives = 62/163 (38%), Gaps = 28/163 (17%)
Query: 175 DEVLMKALRKCEYTSPTPIQAQAVPAALS--------GRDIIGVAKTGSGKTGAFIWPML 226
+E+L K L + T Q + V L R + G GSGKT ML
Sbjct: 222 EELLTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQG--DVGSGKTLVAALAML 278
Query: 227 VHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYG---GGSKWDQ 283
I G ++APT L++Q YN + + V G G + +
Sbjct: 279 AAI--------EAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKEL 330
Query: 284 SKALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADR 325
+ + G +VVGT I + V + R+ +++DE R
Sbjct: 331 LETIASGQIHLVVGTHALIQEKV-----EFKRLALVIIDEQHR 368
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 33.5 bits (77), Expect = 0.14
Identities = 33/116 (28%), Positives = 52/116 (44%), Gaps = 8/116 (6%)
Query: 210 VAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNL 269
V TG GKT FI M ++ L G + L LAPT+ L Q ++ G
Sbjct: 35 VLPTGLGKT--FIAAM---VIA-NRLRWFGGKV-LFLAPTKPLVLQHAEFCRKV-TGIPE 86
Query: 270 SVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADR 325
+ G + ++ + L ++ V TP + + +K G L+ V+ L+ DEA R
Sbjct: 87 DEIAALTGEVRPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHR 142
>gnl|CDD|237497 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 33.3 bits (77), Expect = 0.18
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 186 EYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKT-GAF--IWPMLVHIMDQKELE 236
++ + TP Q A+P G++++ + TGSGKT AF I L + + ELE
Sbjct: 29 KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELE 82
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 33.2 bits (76), Expect = 0.22
Identities = 38/146 (26%), Positives = 60/146 (41%), Gaps = 23/146 (15%)
Query: 187 YTSPTPIQAQAVPAAL-SGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLI 245
P+Q AV A L G +++ V+ T SGKT ++ + L G M L
Sbjct: 214 IEELLPVQVLAVEAGLLEGENLLVVSATASGKT------LIGELAGIPRLLSGGKKM-LF 266
Query: 246 LAPTRELSQQIYNEAKR----FGKGYNLSVVCCYGGGSKWDQSKALELG-----AEIVVG 296
L P L+ Q Y + K G + V G S+ + + A+I+VG
Sbjct: 267 LVPLVALANQKYEDFKERYSKLGLKVAIRV-----GMSRIKTREEPVVVDTSPDADIIVG 321
Query: 297 TPGRIIDMVKMGATKLNRVTFLVLDE 322
T I +++ G L + +V+DE
Sbjct: 322 TYEGIDYLLRTGK-DLGDIGTVVIDE 346
>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional.
Length = 773
Score = 31.8 bits (73), Expect = 0.50
Identities = 27/97 (27%), Positives = 39/97 (40%), Gaps = 31/97 (31%)
Query: 244 LILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSK------WDQSKALELGAEIVVGT 297
LILAPT+ L +Q ++F +V G S W+++K ++V T
Sbjct: 62 LILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWEKAK-------VIVAT 114
Query: 298 P---------GRIIDMVKMGATKLNRVTFLVLDEADR 325
P GRI L V+ L+ DEA R
Sbjct: 115 PQVIENDLIAGRI---------SLEDVSLLIFDEAHR 142
>gnl|CDD|173932 cd08173, Gro1PDH, Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH)
catalyzes the reversible conversion between
dihydroxyacetone phosphate and glycerol-1-phosphate
using either NADH or NADPH as a coenzyme.
Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC
1.1.1.261) plays an important role in the formation of
the enantiomeric configuration of the glycerophosphate
backbone (sn-glycerol-1-phosphate) of archaeal ether
lipids. It catalyzes the reversible conversion between
dihydroxyacetone phosphate and glycerol-1-phosphate
using either NADH or NADPH as a coenzyme. The activity
is zinc-dependent. One characteristic feature of archaea
is that their cellular membrane has an ether linkage
between the glycerol backbone and the hydrocarbon
residues. The polar lipids of the members of Archaea
consist of di- and tetraethers of glycerol with
isoprenoid alcohols bound at the sn-2 and sn-3 positions
of the glycerol moiety. The archaeal polar lipids have
the enantiomeric configuration of a glycerophosphate
backbone [sn- glycerol-1-phosphate (G-1-P)] that is the
mirror image structure of the bacterial or eukaryal
counterpart [sn-glycerol- 3-phosphate (G-3-P)]. The
absolute stereochemistry of the glycerol moiety in all
archaeal polar lipids is opposite to that of glycerol
ester lipids in bacteria and eukarya. This protein
family is only found in Archaea.
Length = 339
Score = 31.5 bits (72), Expect = 0.58
Identities = 14/33 (42%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 283 QSKALELGAEIVVGT-PGRIIDMVKMGATKLNR 314
+S A ++GA+ V+G GR+ID+ K+ A KL
Sbjct: 71 ESSARDIGADFVIGVGGGRVIDVAKVAAYKLGI 103
>gnl|CDD|129701 TIGR00614, recQ_fam, ATP-dependent DNA helicase, RecQ family. All
proteins in this family for which functions are known
are 3'-5' DNA-DNA helicases. These proteins are used for
recombination, recombinational repair, and possibly
maintenance of chromosome stability. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 470
Score = 31.7 bits (72), Expect = 0.59
Identities = 15/41 (36%), Positives = 21/41 (51%)
Query: 187 YTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+S P+Q + + A L GRD V TG GK+ + P L
Sbjct: 9 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC 49
>gnl|CDD|218292 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 100
Score = 29.5 bits (67), Expect = 0.75
Identities = 18/80 (22%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 189 SPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAP 248
P Q +A+ L + + V TGSGKT ++ + L + P
Sbjct: 3 ELRPYQEEAIERLLEKKRGLIVMATGSGKTL-----TAAALIARLA---KGKKKVLFVVP 54
Query: 249 TRELSQQ----IYNEAKRFG 264
++L +Q I +EA
Sbjct: 55 RKDLLEQALVIIIDEAHHSS 74
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 30.8 bits (70), Expect = 1.0
Identities = 17/41 (41%), Positives = 22/41 (53%)
Query: 187 YTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
Y P Q + + A LSGRD + V TG GK+ + P LV
Sbjct: 23 YQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALV 63
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 30.7 bits (69), Expect = 1.3
Identities = 19/91 (20%), Positives = 40/91 (43%), Gaps = 10/91 (10%)
Query: 11 GSPSYKGNNASADTDSDEDPLDAFMKGIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDE 70
G+ S + + A + S E P M + E ++ + + ++ EE + + + E+ E
Sbjct: 413 GTSSRSSDPSKASSTSGESPS---MASQESEEEESVEE-EEEEEEEEEEEEQESEEEEGE 468
Query: 71 ESYYRYMEENPNAGLQDNDSDVDLEYDEDGN 101
+ EE DN S+ ++E +G+
Sbjct: 469 D------EEEEEEVEADNGSEEEMEGSSEGD 493
>gnl|CDD|236794 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional.
Length = 681
Score = 30.5 bits (70), Expect = 1.5
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 245 ILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAE----IVVGT 297
++APT L++Q Y K+ + + V G ++ + LE A IV+GT
Sbjct: 315 LMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGT 371
>gnl|CDD|215408 PLN02763, PLN02763, hydrolase, hydrolyzing O-glycosyl compounds.
Length = 978
Score = 30.2 bits (68), Expect = 1.7
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 148 ELRAKSGITVSGADPPYPVSSFGHFGFDEVLMKAL 182
+LR +S I + A YPV +FG F E L+ +L
Sbjct: 140 DLRKESIIRII-APASYPVITFGPFPSPEALLTSL 173
>gnl|CDD|235032 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 30.3 bits (69), Expect = 1.7
Identities = 41/134 (30%), Positives = 65/134 (48%), Gaps = 17/134 (12%)
Query: 192 PIQAQAVPA-ALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTR 250
P QA+AV A L G++++ T SGKT ML I G L + P R
Sbjct: 26 PPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR--------GGKALYIVPLR 77
Query: 251 ELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWD-QSKALELGA-EIVVGTPGRIIDMVKMG 308
L+ + + E +RF + + V G S D S+ LG +I+V T ++ +++ G
Sbjct: 78 ALASEKFEEFERFEE-LGVRV-----GISTGDYDSRDEWLGDNDIIVATSEKVDSLLRNG 131
Query: 309 ATKLNRVTFLVLDE 322
A L+ +T +V+DE
Sbjct: 132 APWLDDITCVVVDE 145
>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated.
Length = 619
Score = 30.1 bits (69), Expect = 1.8
Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 4/63 (6%)
Query: 54 IEEVKGIRDDIDHEDDEESYYRYMEENPNAGLQDNDSDVDLEYDEDGNPIAPKKSKYIDP 113
+ +R+ ID D + E+ + G + + D D + +E+ + +
Sbjct: 160 ENGERRLRELIDGFVDPNA----EEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESE 215
Query: 114 LPP 116
LP
Sbjct: 216 LPE 218
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 30.1 bits (68), Expect = 2.0
Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 4/61 (6%)
Query: 211 AKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLS 270
A TG GKT A + L ++D+K + + P R + + +Y AK +++
Sbjct: 221 APTGYGKTEASLILAL-ALLDEKI---KLKSRVIYVLPFRTIIEDMYRRAKEIFGLFSVI 276
Query: 271 V 271
Sbjct: 277 G 277
>gnl|CDD|222318 pfam13685, Fe-ADH_2, Iron-containing alcohol dehydrogenase.
Length = 247
Score = 29.4 bits (67), Expect = 2.1
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 285 KALELGAEIVVGT-PGRIIDMVKMGATKLNR 314
+ALE A+ VV G I D+ K A KL +
Sbjct: 68 EALERDADAVVAVGGGTINDIAKYAAFKLGK 98
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 30.0 bits (68), Expect = 2.3
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 194 QAQAVPAALSGRDIIGVAKTGSGK 217
Q + + A LSG+D + V TG GK
Sbjct: 22 QQEIIDALLSGKDTLVVMPTGGGK 45
>gnl|CDD|183027 PRK11190, PRK11190, Fe/S biogenesis protein NfuA; Provisional.
Length = 192
Score = 29.2 bits (66), Expect = 2.4
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 7/38 (18%)
Query: 37 GIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDEESYY 74
GI+K++ E G E+KG+RD +H+ E SYY
Sbjct: 162 GIEKQLLNEFPG-------ELKGVRDLTEHQRGEHSYY 192
>gnl|CDD|239150 cd02749, Macro, Macro domain, a high-affinity ADP-ribose binding
module found in a variety of proteins as a stand-alone
domain or in combination with other domains like in
histone macroH2A and some PARPs (poly ADP-ribose
polymerases). Some macro domains recognize poly
ADP-ribose as a ligand. Previously identified as
displaying an Appr-1"-p (ADP-ribose-1"-monophosphate)
processing activity, the macro domain may play roles in
distinct ADP-ribose pathways, such as the
ADP-ribosylation of proteins, an important
post-translational modification which occurs in DNA
repair, transcription, chromatin biology, and long-term
memory formation, among other processes.
Length = 147
Score = 28.5 bits (64), Expect = 2.6
Identities = 21/74 (28%), Positives = 27/74 (36%), Gaps = 11/74 (14%)
Query: 198 VPAALS-GRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPG----------DGPMGLIL 246
V AA S GRD GV S K G + + + EL+ G DG LI
Sbjct: 19 VNAANSSGRDGGGVNLAISKKAGKELEEESKKLRKELELQVGEAVLTKGYNLDGAKYLIH 78
Query: 247 APTRELSQQIYNEA 260
+ +Q A
Sbjct: 79 IVGPKYNQGNNKAA 92
>gnl|CDD|212669 cd10227, ParM_like, Plasmid segregation protein ParM and similar
proteins. ParM is a plasmid-encoded bacterial homolog
of actin, which polymerizes into filaments similar to
F-actin, and plays a vital role in plasmid segregation.
ParM filaments segregate plasmids paired at midcell into
the individual daughter cells. This subfamily also
contains Thermoplasma acidophilum Ta0583, an active
ATPase at physiological temperatures, which has a
propensity to form filaments.
Length = 312
Score = 29.3 bits (66), Expect = 2.6
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 250 RELSQQIYNEAKRFGKGYNLSVVCCYGGGS 279
E +++I NE K F ++ V GGG+
Sbjct: 252 EEYAEKILNELKEFLGLSDVDKVILVGGGA 281
>gnl|CDD|179139 PRK00843, egsA, NAD(P)-dependent glycerol-1-phosphate
dehydrogenase; Reviewed.
Length = 350
Score = 29.5 bits (67), Expect = 2.7
Identities = 10/31 (32%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 285 KALELGAEIVVGT-PGRIIDMVKMGATKLNR 314
KA ++ A ++G G++ID+ K+ A +L
Sbjct: 82 KAKDVNAGFLIGVGGGKVIDVAKLAAYRLGI 112
>gnl|CDD|164550 CHL00164, psaK, photosystem I subunit X; Validated.
Length = 86
Score = 27.5 bits (61), Expect = 2.9
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 155 ITVSGADPPYPVSSFGHFGFDEVL 178
I V G P P+S FG E+L
Sbjct: 39 IQVRGLGPSIPISGLKGFGLPELL 62
>gnl|CDD|222875 PHA02558, uvsW, UvsW helicase; Provisional.
Length = 501
Score = 29.2 bits (66), Expect = 3.4
Identities = 27/116 (23%), Positives = 42/116 (36%), Gaps = 20/116 (17%)
Query: 194 QAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELS 253
Q AV L + T +GK+ I +L LE +G + LI+ PT L
Sbjct: 119 QYDAVYEGLKNNRRLLNLPTSAGKS--LIQYLLSRYY----LENYEGKV-LIIVPTTSLV 171
Query: 254 QQIYNEAKRFG---KGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVK 306
Q+ ++ + + + Y G +K A IVV T + K
Sbjct: 172 TQMIDDFVDYRLFPREAMHKI---YSGTAKDTD-------APIVVSTWQSAVKQPK 217
>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional.
Length = 374
Score = 28.9 bits (64), Expect = 3.6
Identities = 25/96 (26%), Positives = 45/96 (46%), Gaps = 20/96 (20%)
Query: 17 GNNASADTDSDEDPLDAFMKGIDKEVK-QEAKGVKTKKIEE--VKGI------------- 60
GN AS D ++ D ++G++ VK +E +G + ++ E+ V+ I
Sbjct: 72 GNVASIANDKSDNENDVELEGLNIIVKNEEERGTQKEEEEDEDVEEIEEVEEVEVVEEEY 131
Query: 61 -RDDIDHEDDEESYYRYMEENPNAG---LQDNDSDV 92
D+ +DDE+ +EN AG +++ D DV
Sbjct: 132 DDDEDSEKDDEKESDAEGDENELAGEYIIEEVDDDV 167
>gnl|CDD|212130 cd11665, LamB_like, Aspergillus nidulans lactam utilization protein
LamB and similar proteins. This eukaryotic and
bacterial subfamily of the LamB/YbgL family, includes
Aspergillus nidulans protein LamB. The lamb gene locates
at the lam locus of Aspergillus nidulans, consisting of
two divergently transcribed genes, lamA and lamB, needed
for the utilization of lactams such as 2-pyrrolidinone.
Both genes are under the control of the positive
regulatory gene amdR and are subject to carbon and
nitrogen metabolite repression. Although the exact
molecular function of lamb encoding protein LamB is
unknown, it might be required for conversion of
exogenous 2-pyrrolidinone to endogenous GABA.
Length = 238
Score = 28.8 bits (65), Expect = 3.8
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 92 VDLEYDEDGNPIAPKKSKYIDP 113
DL+YD DG + ++ K IDP
Sbjct: 162 ADLDYDPDGKLVITREHKAIDP 183
>gnl|CDD|223448 COG0371, GldA, Glycerol dehydrogenase and related enzymes [Energy
production and conversion].
Length = 360
Score = 28.8 bits (65), Expect = 4.4
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 265 KGYNLSVVCCYGGGS-----KWDQSKALELGAEIVVGT-PGRIIDMVKMGATKLN 313
K L V + G + + ++A E GA++V+G G+ ID K A +L
Sbjct: 54 KDEGLVVHVVFVGEASEEEVERLAAEAGEDGADVVIGVGGGKTIDTAKAAAYRLG 108
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 28.9 bits (65), Expect = 4.8
Identities = 26/168 (15%), Positives = 50/168 (29%), Gaps = 35/168 (20%)
Query: 55 EEVKGIRDDIDHEDDEESYYRYMEENPNAGLQDNDSDVDLEYDEDGNPIAPKK--SKYID 112
E + E E + + D+ ++ + K + +
Sbjct: 12 EYGFVSTKEKRVERKAA-----TAEEESLK----NIDISDLFERSVDMNKDPKEATDQVK 62
Query: 113 PLPPIDHSTIVYEEVEKNFYQPHEDIARLTPQEAQELRAK-SGITVSGADPPYPVSSFG- 170
+ HS I V RL+ +E ++ V A+ P+ ++
Sbjct: 63 AVD--KHSEIESLNVGM------RLDVRLSSKELSDVAVPDDYDMVPDAESPFDLAPPAR 114
Query: 171 HFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKT 218
+ F+ P Q +A+ G ++ A T SGKT
Sbjct: 115 EYPFE--------------LDPFQQEAIAILERGESVLVCAPTSSGKT 148
>gnl|CDD|227494 COG5165, POB3, Nucleosome-binding factor SPN, POB3 subunit
[Transcription / DNA replication, recombination, and
repair / Chromatin structure and dynamics].
Length = 508
Score = 28.8 bits (64), Expect = 4.9
Identities = 22/90 (24%), Positives = 35/90 (38%), Gaps = 9/90 (10%)
Query: 11 GSPSYKGNNASADTDSDEDPLDAFMKGIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDE 70
SY NN S D ++ L+ F+ K +K + V+ + ++ I D D
Sbjct: 411 SPGSYTFNNISKD---EQGALEQFLHS--KGIKARNEEVQERLQTDLGSISDSEDINMGS 465
Query: 71 ESYY-RYMEENPNAGLQDNDSDVDLEYDED 99
+E+ +DSDV EYD
Sbjct: 466 AGEEDESEDEDFQM---VSDSDVAEEYDLQ 492
>gnl|CDD|217607 pfam03544, TonB, Gram-negative bacterial tonB protein.
Length = 79
Score = 26.5 bits (59), Expect = 5.5
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALS 203
+ S GH D+ ++A+RK + P P + V +S
Sbjct: 36 LKSSGHGILDKAALEAVRKWRF-PPAPKNGKPVTVKVS 72
>gnl|CDD|184377 PRK13894, PRK13894, conjugal transfer ATPase TrbB; Provisional.
Length = 319
Score = 28.2 bits (63), Expect = 5.6
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 191 TPIQAQAVPAALSG-RDIIGVAKTGSGKT---GAFIWPMLVH 228
T Q +A+ AA+ R+I+ + TGSGKT A I M++
Sbjct: 134 TAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQ 175
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 28.4 bits (63), Expect = 6.2
Identities = 22/100 (22%), Positives = 44/100 (44%), Gaps = 6/100 (6%)
Query: 54 IEEVKGIRDDIDHEDDEESYYRYMEENPNAGLQDNDSDVDLEYDEDGNPIAPKKSKYIDP 113
+EE+ D + D +ES R +E + N + DS V + D + ++
Sbjct: 3837 LEELANEEDTANQSDLDESEARELESDMNGVTK--DSVVSENENSDSEEENQDLDEEVND 3894
Query: 114 LPPIDHSTIVYEEVEKNFYQPHEDIARLTPQEAQELRAKS 153
+P +++ EK + +P+E+ T Q++ E A +
Sbjct: 3895 IPEDLSNSL----NEKLWDEPNEEDLLETEQKSNEQSAAN 3930
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 28.2 bits (63), Expect = 6.7
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 7/40 (17%)
Query: 42 VKQEAKGVKTKKIE-------EVKGIRDDIDHEDDEESYY 74
V + A G K K+IE V+G R+D+ + YY
Sbjct: 127 VPETASGGKLKQIESYGAEVVRVRGSREDVAKAAENSGYY 166
>gnl|CDD|131155 TIGR02100, glgX_debranch, glycogen debranching enzyme GlgX. This
family consists of the GlgX protein from the E. coli
glycogen operon and probable equivalogs from other
prokaryotic species. GlgX is not required for glycogen
biosynthesis, but instead acts as a debranching enzyme
for glycogen catabolism. This model distinguishes GlgX
from pullanases and other related proteins that also
operate on alpha-1,6-glycosidic linkages. In the wide
band between the trusted and noise cutoffs are
functionally similar enzymes, mostly from plants, that
act similarly but usually are termed isoamylase [Energy
metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 688
Score = 28.1 bits (63), Expect = 7.8
Identities = 25/82 (30%), Positives = 30/82 (36%), Gaps = 23/82 (28%)
Query: 68 DDEESYYRYMEENPNAGLQDNDSDVDLEYDEDGNPIAPKKSKYIDPLP-----------P 116
DD YR G D D D + D P PK + +DP P
Sbjct: 104 DDALFGYRI-------GHPDQDLSFD---ERDSAPGMPK-AVVVDPDFDWGGDEQRPRTP 152
Query: 117 IDHSTIVYEEVEKNFYQPHEDI 138
+ TI+YE K F Q H DI
Sbjct: 153 WED-TIIYEAHVKGFTQLHPDI 173
>gnl|CDD|202846 pfam03993, DUF349, Domain of Unknown Function (DUF349). This
domain is found singly or as up to five tandem repeats
in a small set of bacterial proteins. There are two or
three alpha-helices, and possibly a beta-strand.
Length = 77
Score = 26.0 bits (58), Expect = 8.1
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 24 TDSDEDPLDAFMKGIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDEESYYRYMEE 79
D+ + +AF +D+E + E K IEE + + + D + E +E
Sbjct: 11 RDAFFERRNAFFAELDEE-RAENLEKKEALIEEAEALAESTDWKAATERLRELQDE 65
>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation
[Intracellular trafficking and secretion].
Length = 776
Score = 28.0 bits (62), Expect = 8.5
Identities = 24/145 (16%), Positives = 49/145 (33%), Gaps = 16/145 (11%)
Query: 2 SKLEYIPAPGSPSYKGNNASADTDSD--EDPLDAFMKGIDKEVKQEAKGVKTKKIEE-VK 58
+ Y + + + + + ED D + D + + +K V
Sbjct: 365 DDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELENHFRAADEKNSHLVV 424
Query: 59 GIRDDIDHEDDEESYYRYMEENPNAGLQDNDSDVDLEYDEDGNPIAPKKSKYIDPLPPID 118
G R++ Y+ + G+ N + LE+ ++ K IDP +
Sbjct: 425 GFRNERS----------YVTRGNSIGVFKNTDEGSLEFKAAIKNVSDDGGKSIDPEKIML 474
Query: 119 H---STIVYEEVEKNFYQPHEDIAR 140
H S+++Y + + DI R
Sbjct: 475 HDNDSSLIYLDGGERDKLYKMDIER 499
>gnl|CDD|130366 TIGR01299, synapt_SV2, synaptic vesicle protein SV2. This model
describes a tightly conserved subfamily of the larger
family of sugar (and other) transporters described by
PFAM model pfam00083. Members of this subfamily include
closely related forms SV2A and SV2B of synaptic vesicle
protein from vertebrates and a more distantly related
homolog (below trusted cutoff) from Drosophila
melanogaster. Members are predicted to have two sets of
six transmembrane helices.
Length = 742
Score = 28.0 bits (62), Expect = 8.6
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 11/59 (18%)
Query: 33 AFMKGIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDEESYYRYMEENPNAGLQDNDSD 91
AF+KG K++ +E K KK+ K + D E + SY R+ +E D+D D
Sbjct: 10 AFIKGA-KDIAKEVKKHAAKKV--NKAL-DRAQDEYSQRSYSRFEDE-------DDDDD 57
>gnl|CDD|222053 pfam13337, Lon_2, Putative ATP-dependent Lon protease. This is a
family of proteins that are annotated as ATP-dependent
Lon proteases.
Length = 457
Score = 28.0 bits (63), Expect = 8.9
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 171 HFGF-DEVL---MKALRKCEYTSPTPIQAQA-VPAALSGRDIIGVAKTGSG 216
+GF + L + LRK ++ + + LSGRD+ V KT SG
Sbjct: 360 GYGFIVDYLAEALHELRKRSFSDV--VDRYFRLGGNLSGRDVKAVKKTVSG 408
>gnl|CDD|224121 COG1200, RecG, RecG-like helicase [DNA replication, recombination,
and repair / Transcription].
Length = 677
Score = 27.9 bits (63), Expect = 9.1
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 14/89 (15%)
Query: 214 GSGKTG-AFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVV 272
GSGKT A + ++ ++ G ++APT L++Q Y +++ + + V
Sbjct: 293 GSGKTVVALL--AMLAAIEA-------GYQAALMAPTEILAEQHYESLRKWLEPLGIRVA 343
Query: 273 CCYG---GGSKWDQSKALELG-AEIVVGT 297
G G ++ + + L G +IVVGT
Sbjct: 344 LLTGSLKGKARKEILEQLASGEIDIVVGT 372
>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2
subunit 1; Provisional.
Length = 319
Score = 27.7 bits (62), Expect = 9.3
Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 8/89 (8%)
Query: 11 GSPSYKGNNASADTDSDEDPLDAFMKGIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDE 70
P Y +D D + + A ++ I + +K++ K K EV G DE
Sbjct: 225 APPQYVIVTTCSDKDKGMEIIGAALEAIKEVIKKKGGDFKVKGEPEVVG--------GDE 276
Query: 71 ESYYRYMEENPNAGLQDNDSDVDLEYDED 99
E +E+ +D+ S+ + E +ED
Sbjct: 277 EDLEELLEKAEEEEEEDDYSESEDEDEED 305
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 27.7 bits (62), Expect = 9.6
Identities = 14/96 (14%), Positives = 35/96 (36%)
Query: 19 NASADTDSDEDPLDAFMKGIDKEVKQEAKGVKTKKIEEVKGIRDDIDHEDDEESYYRYME 78
A+ + +D K E K K + D+ ++ D++ +
Sbjct: 81 TAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDD 140
Query: 79 ENPNAGLQDNDSDVDLEYDEDGNPIAPKKSKYIDPL 114
+ + + D+D D D + D+D + + + + +
Sbjct: 141 DLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAK 176
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 27.7 bits (62), Expect = 9.6
Identities = 23/77 (29%), Positives = 30/77 (38%), Gaps = 13/77 (16%)
Query: 194 QAQAVPAALSGRDIIGVA----KTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPT 249
Q AV A LS TGSGKT ++ + + L G L+L P
Sbjct: 203 QQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYL-----EAIAKV-LA--QGKQVLVLVPE 254
Query: 250 RELSQQIYNEAK-RFGK 265
L+ Q+ K RFG
Sbjct: 255 IALTPQLLARFKARFGA 271
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.135 0.393
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,632,179
Number of extensions: 1765441
Number of successful extensions: 1716
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1675
Number of HSP's successfully gapped: 96
Length of query: 330
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 233
Effective length of database: 6,635,264
Effective search space: 1546016512
Effective search space used: 1546016512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.7 bits)