RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780608|ref|YP_003065021.1| ribosomal large subunit
pseudouridine synthase C [Candidatus Liberibacter asiaticus str.
psy62]
(346 letters)
>gnl|CDD|30910 COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific
[Translation, ribosomal structure and biogenesis].
Length = 289
Score = 226 bits (576), Expect = 1e-59
Identities = 100/308 (32%), Positives = 154/308 (50%), Gaps = 22/308 (7%)
Query: 7 VQYVVVENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVR 66
+ V +E RLD++ P I+ +QK++R G+VRV+ K+VK + +++ G VVR
Sbjct: 1 MLEFEVPEEEAGQRLDKFLAKLLP-ISRSRIQKLIRKGRVRVNGKKVKPSYKLKPGDVVR 59
Query: 67 IPPVINALNHIIKEQKILDSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIA 126
IP + + I +LYED + V NKPAG+ V G G
Sbjct: 60 IPLPEEPEEEKLVPEDIPLD--------------ILYEDEDLLVVNKPAGLVVHPGGGHH 105
Query: 127 YHID-GFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWS 185
L ++P + HRLD++TSG+L+VA+ R AA+ L+E F+ R+++K Y +
Sbjct: 106 EGTLVNALLRHCQDGVERPGIVHRLDKDTSGLLLVAKNREAARELSEQFKQRKVKKTYLA 165
Query: 186 LVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEM 245
LV G + I + + V + + K AI+H++V++ F + +E+
Sbjct: 166 LVRGHLPEDEGTIDAPIGRDPKNRKKMAVVKEGSGK---PAITHYEVLERFGDNYTLVEL 222
Query: 246 QPHTGRTHQLRVHALHMGCPIVGDHKYCANFKGNFTSPIQNKLYLHARYMDLPHPEGGR- 304
+P TGRTHQ+RVH H+G PIVGD Y K + LHA + HP G
Sbjct: 223 KPETGRTHQIRVHLAHLGHPIVGDPLYGGKDK--SAGAGLKRQALHAYKLSFTHPLTGEE 280
Query: 305 LQITAPLP 312
L+ APLP
Sbjct: 281 LEFEAPLP 288
>gnl|CDD|30029 cd02869, PseudoU_synth_RluCD_like, PseudoU_synth_RsuA/RluD:
Pseudouridine synthase, RsuA/RluD family. This group is
comprised of eukaryotic, bacterial and archeal proteins
similar to eight site specific Escherichia coli
pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD,
RluE, RluF and TruA. Pseudouridine synthases catalyze
the isomerization of specific uridines in a n RNA
molecule to pseudouridines (5-ribosyluracil, psi)
requiring no cofactors. E. coli RluC for example makes
psi955, 2504 and 2580 in 23S RNA. Some psi sites such
as psi1917 in 23S RNA made by RluD are universally
conserved. Other psi sites occur in a more restricted
fashion, for example psi2819 in 21S mitochondrial
ribosomal RNA made by S. cerevisiae Pus5p is only found
in mitochondrial large subunit rRNAs from some other
species and in gram negative bacteria. The E. coli
counterpart of this psi residue is psi2580 in 23S rRNA.
psi2604in 23S RNA made by RluF has only been detected in
E.coli. .
Length = 185
Score = 166 bits (421), Expect = 9e-42
Identities = 68/193 (35%), Positives = 99/193 (51%), Gaps = 11/193 (5%)
Query: 108 IYVFNKPAGISVQGGSGIAYHID---GFLKSWVDSKGQKPRLTHRLDQETSGILVVARTR 164
+ V NKPAG+ V G G + + +P L HRLD++TSG+L+VA+ +
Sbjct: 1 LLVVNKPAGLPVHPGPGHLTGTLVNALLKLLLLLGEEFRPGLVHRLDKDTSGLLLVAKNK 60
Query: 165 AAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGAN 224
AA L++ F+ R+++K Y +LV G P + I L +K V V +
Sbjct: 61 KAAAKLSKQFKERKVKKTYLALVDGKPPEDEGTIDAPLGRKKRKKRARVVV----SEDGK 116
Query: 225 YAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDHKYCANFKGNFTSPI 284
AI+H+KV++ F +E+Q TGRTHQ+RVH +G PIVGD KY SP
Sbjct: 117 PAITHYKVLERFG-NVTLVELQLETGRTHQIRVHLASIGHPIVGDPKYGGKAS---DSPG 172
Query: 285 QNKLYLHARYMDL 297
+L LHA +
Sbjct: 173 LKRLALHAYRLSF 185
>gnl|CDD|144443 pfam00849, PseudoU_synth_2, RNA pseudouridylate synthase. Members
of this family are involved in modifying bases in RNA
molecules. They carry out the conversion of uracil bases
to pseudouridine. This family includes RluD, a
pseudouridylate synthase that converts specific uracils
to pseudouridine in 23S rRNA. RluA from E. coli converts
bases in both rRNA and tRNA.
Length = 151
Score = 115 bits (291), Expect = 1e-26
Identities = 42/158 (26%), Positives = 71/158 (44%), Gaps = 11/158 (6%)
Query: 108 IYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAA 167
V NKPAG+ V L + + HRLD++TSG+L++A+ AA
Sbjct: 1 YIVVNKPAGVPVHPTDLSDLLSLTELLLVAELGKFRLYPVHRLDRDTSGLLLLAKDGEAA 60
Query: 168 QHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNE--KGANY 225
L + F R+++K Y +LV G + + K+ I D V ++ +
Sbjct: 61 NKLNKLFPERKVEKEYLALVDGPEEEEGTI-------KAPIKKDKNKVPRRKKEELDGKK 113
Query: 226 AISHFKVIDCF--AQKFCWLEMQPHTGRTHQLRVHALH 261
A++H +V+ + +E++ TGR HQ+R H
Sbjct: 114 AVTHLRVLRSGSKIEDVSLVELELVTGRKHQIRAHLAA 151
>gnl|CDD|37130 KOG1919, KOG1919, KOG1919, RNA pseudouridylate synthases [RNA
processing and modification].
Length = 371
Score = 115 bits (290), Expect = 1e-26
Identities = 66/237 (27%), Positives = 105/237 (44%), Gaps = 25/237 (10%)
Query: 41 LRSGQVRVDKKRVKFNNRIQSGQVVRIPPVINALNHIIKEQKILDSSVNLTKHSDFLKSI 100
++ G+V V+ ++V+ + +++G V + ++ + I
Sbjct: 66 IKLGRVTVNGEQVRVSLIVKNGDV--LCHTVHRHEPPVAYLPIR---------------- 107
Query: 101 LLYEDSKIYVFNKPAGISVQ-GGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILV 159
+++ED V NKP GI V G I L + +G R HRLD+ TSG+LV
Sbjct: 108 IVFEDKDYVVVNKPHGIPVHPTGRYRENTITKILAALHKVEG--LRPCHRLDRLTSGLLV 165
Query: 160 VARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKK---ECIANWLLKKSHIGGDYVHVV 216
+A+T+ AA E R R ++K Y P E ++ + V
Sbjct: 166 LAKTKEAADKFHEVLRKRTVKKEYVVARVEGPFPVVGEVEIKEPIGEEERPLRMGLNAVG 225
Query: 217 KQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDHKYC 273
++E A A + FKV+ +E +P TGRTHQ+RVH ++G PI GD KY
Sbjct: 226 VRDEVAAKDAKTLFKVLSYDGGSS-LVECRPLTGRTHQIRVHLQYLGHPIAGDPKYG 281
>gnl|CDD|30016 cd02563, PseudoU_synth_TruC, tRNA pseudouridine isomerase C:
Pseudouridine synthases catalyze the isomerization of
specific uridines in an tRNA molecule to pseudouridines
(5-ribosyluracil, psi). No cofactors are required. TruC
makes psi65 in tRNAs. This psi residue is not
universally conserved..
Length = 223
Score = 107 bits (269), Expect = 5e-24
Identities = 67/229 (29%), Positives = 105/229 (45%), Gaps = 25/229 (10%)
Query: 101 LLYEDSKIYVFNKPAGISVQGGSGIAYHIDGF-LKSWVDSKGQKPRLTHRLDQETSGILV 159
+LY+D + NKP+G+ V S + H F L++ D GQ HRLD+ TSG+L+
Sbjct: 3 ILYQDEHLVAINKPSGLLVHR-SELDRHETRFALQTLRDQLGQHVYPVHRLDRPTSGVLL 61
Query: 160 VARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQN 219
A + A+ L E F R+ K Y ++V G + + + +
Sbjct: 62 FALSSEVARKLGEQFTEHRVHKTYLAVVRGYVPESGTIDYPLSEELDKLADKFA----SD 117
Query: 220 EKGANYAISHFK---------VIDCFAQ-KFCWLEMQPHTGRTHQLRVHALHMGCPIVGD 269
+K A +H++ V+ + ++ +E+ PHTGR HQLR H H+ PI+GD
Sbjct: 118 DKAPQAATTHYRLLAVEELPVVVGKYPTSRYSLVELTPHTGRKHQLRRHLAHIRHPIIGD 177
Query: 270 HKYCAN-----FKGNFTSPIQNKLYLHARYMDLPHPEGG-RLQITAPLP 312
+ F+ +F +L L A ++ HP G RL I APL
Sbjct: 178 TTHGDGRHNRFFREHFGCH---RLLLAATRLEFTHPVTGERLLIEAPLD 223
>gnl|CDD|73313 cd02557, PseudoU_synth_ScRIB2, PseudoU_synth_ScRIB2_like:
Pseudouridine synthase, Saccharomyces cerevisiae
RIB2_like. This group is comprised of eukaryotic and
bacterial proteins similar to Saccharomyces cerevisiae
RIB2, S. cerevisiae Pus6p and human hRPUDSD2. S.
cerevisiae RIB2 displays two distinct catalytic
activities. The N-terminal domain of RIB2 is
RNA:psi-synthase which makes psi32 on cytoplasmic tRNAs.
Psi32 is highly phylogenetically conserved. The
C-terminal domain of RIB2 has a DRAP deaminase activity
which catalyses the formation of
5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione
5'-phosphate from
2,5-diamino-6-ribitylamino-4(3H)-pyrimidinone
5'-phosphate during riboflavin biosynthesis. S.
cerevisiae Pus6p makes the psi31 of cytoplasmic and
mitochondrial tRNAs..
Length = 213
Score = 89.5 bits (222), Expect = 1e-18
Identities = 60/202 (29%), Positives = 88/202 (43%), Gaps = 30/202 (14%)
Query: 101 LLYEDSKIYVFNKPAGISVQGGSGIAYH-IDGFLKSWVDSKGQKPRLTHRLDQETSGILV 159
+++ED + V +KP+GI V Y+ + LKS +P HRLD+ TSG+L+
Sbjct: 18 IVHEDDDLLVVDKPSGIPVHPTGRYRYNTVTEILKSEYGLTELRP--CHRLDRLTSGLLL 75
Query: 160 VARTRAAAQHLTESFRMRRIQKIYWSLVWG-IPKNKKECIANWLLKKSHIGGDYVHVVKQ 218
A+T A L + R R ++K Y + V G P + L G +
Sbjct: 76 FAKTSQTASRLQQQIRSREVKKEYLARVKGEFPDGEVVVDQPIGLVSPKGG-----LRND 130
Query: 219 NEKGANYAISHFKVIDCFAQK-----FCWLEMQPHTGRTHQLRVHALHMGCPIVGDHKYC 273
++ A + FK + C +P TGRTHQ+RVH ++G PIV D Y
Sbjct: 131 VDEKGKDARTIFKRLSYNGDLNTSVVLC----KPITGRTHQIRVHLQYLGHPIVNDPIYN 186
Query: 274 ANFKGNFTSPIQNKLYLHA-RY 294
+YLHA RY
Sbjct: 187 -----------NLGIYLHALRY 197
>gnl|CDD|30015 cd02558, PSRA_1, PSRA_1: Pseudouridine synthase, a subgroup of the
RluA family. This group is comprised of bacterial
proteins assigned to the RluA family of pseudouridine
synthases. Pseudouridine synthases catalyze the
isomerization of specific uridines in an RNA molecule to
pseudouridines (5-ribosyluracil, psi). No cofactors are
required. The RluA family is comprised of proteins
related to Escherichia coli RluA. .
Length = 246
Score = 74.9 bits (184), Expect = 3e-14
Identities = 56/219 (25%), Positives = 94/219 (42%), Gaps = 38/219 (17%)
Query: 101 LLYEDSKIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLT--HRLDQETSGIL 158
+L++D + V +KP + V ++ L + + P LT HRLD+ T+G++
Sbjct: 41 ILHQDEHLLVADKPHFLPVTPRGR---YVTETLLVRLRRQTGNPDLTPAHRLDRLTAGLV 97
Query: 159 VVAR---TRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANW-------LLKKSHI 208
+ ++ TR A Q L F R + K Y E +A + L +S I
Sbjct: 98 LFSKRPETRGAYQTL---FARREVSKTY------------EAVAPYVPALTFPLTVRSRI 142
Query: 209 GGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVG 268
+ +G A + +++ + + PHTG+THQLRVH +G PI+
Sbjct: 143 VKGRGFFQAREVEGEPNAETRIELLARR-GGWGLYRLSPHTGKTHQLRVHMAALGVPILN 201
Query: 269 DHKY---CANFKGNFTSPIQNKLYLHARYMDLPHPEGGR 304
D Y +F+ P+Q L A+ ++ P GR
Sbjct: 202 DPFYPVLLDKDPDDFSRPLQ----LLAKELEFTDPLTGR 236
>gnl|CDD|30008 cd02550, PseudoU_synth_Rsu_Rlu_like, PseudoU_synth_Rsu_Rlu:
Pseudouridine synthase, Rsu/Rlu family. This group is
comprised of eukaryotic, bacterial and archeal proteins
similar to eight site specific Escherichia coli
pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD,
RluE, RluF and TruA. Pseudouridine synthases catalyze
the isomerization of specific uridines in a n RNA
molecule to pseudouridines (5-ribosyluracil, psi)
requiring no cofactors. E. coli RluC for example makes
psi955, 2504 and 2580 in 23S RNA. Some psi sites such
as psi1917 in 23S RNA made by RluD are universally
conserved. Other psi sites occur in a more restricted
fashion, for example psi2819 in 21S mitochondrial
ribosomal RNA made by S. cerevisiae Pus5p is only found
in mitochondrial large subunit rRNAs from some other
species and in gram negative bacteria. The E. coli
counterpart of this psi residue is psi2580 in 23S rRNA.
psi2604in 23S RNA made by RluF has only been detected in
E.coli..
Length = 154
Score = 72.2 bits (177), Expect = 2e-13
Identities = 42/162 (25%), Positives = 63/162 (38%), Gaps = 17/162 (10%)
Query: 108 IYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLT--HRLDQETSGILVVARTRA 165
I V NKP+G+ + PR+ RLD++TSG+L++
Sbjct: 1 ILVLNKPSGLVCHPTDRDRDPTVVVRLDKLHG----PRVHAAGRLDKDTSGLLLLTNDGR 56
Query: 166 AAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANY 225
+ LTE R I+K Y V G + L G V + G
Sbjct: 57 LQRRLTEP--RREIEKEYLVTVRGELDEEGIED----LATVRRGRLSGLVDE----GVPL 106
Query: 226 AISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIV 267
A++ +VI L + TGRTHQ+R H +G P++
Sbjct: 107 AVTKVRVIGEHGGTG-RLRLTLKTGRTHQIRRHCAAVGFPVL 147
>gnl|CDD|30030 cd02870, PseudoU_synth_RsuA_like, Pseudouridine synthases are
responsible for the synthesis of pseudouridine from
uracil in ribosomal RNA. The RsuA subfamily includes
Pseudouridine Synthase similar to Ribosomal small
subunit pseudouridine 516 synthase. Most of the proteins
in this family are bacterial proteins..
Length = 146
Score = 38.2 bits (89), Expect = 0.004
Identities = 36/161 (22%), Positives = 58/161 (36%), Gaps = 25/161 (15%)
Query: 109 YVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTH--RLDQETSGILVVARTRAA 166
+ NKP G+ +G K RL RLD +T G+L++
Sbjct: 2 LLLNKPRGVVST-----VRDPEGRPTVLDLLKDVGERLFPVGRLDYDTEGLLLLTNDGEL 56
Query: 167 AQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYA 226
A LT ++K Y V G+P +E + + + G A
Sbjct: 57 ANRLTHP--RYGVEKTYLVKVRGVPS--EEELRRLR------------AGVELDDGKT-A 99
Query: 227 ISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIV 267
+ KV+ + LE+ H GR Q+R +G P++
Sbjct: 100 PAKVKVLSRDPKN-TLLEVTLHEGRNRQVRRMFEAVGHPVL 139
>gnl|CDD|31380 COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and
related pseudouridylate synthases [Translation,
ribosomal structure and biogenesis].
Length = 248
Score = 35.6 bits (82), Expect = 0.019
Identities = 40/233 (17%), Positives = 76/233 (32%), Gaps = 48/233 (20%)
Query: 38 QKILRSGQVRVDKKRVKFNNRIQSGQVVRIPPVINALNHIIKEQKILDSSVNLTKHSDFL 97
+K++ G+V V+ G+V + V+ + + E
Sbjct: 21 EKLIEEGRVTVN------------GKVATLGGVVVDPDDDVVE---------------VD 53
Query: 98 KSILLYEDSKIYV-FNKPAGI--SVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQET 154
+ ++ ++Y+ NKP G S + G D L + K ++ RLD++T
Sbjct: 54 GKRIELKEERVYLLLNKPRGYVSSTEDDEGRPTVFD-LLPERLPRK-KRLFPVGRLDKDT 111
Query: 155 SGILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVH 214
G+L++ A L ++K Y V G + L K +
Sbjct: 112 EGLLLLTNDGELAHRLMHP--SSEVEKEYLVRVEGPVTEED---LEKLRKGVTLDD---- 162
Query: 215 VVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIV 267
G + + WL + GR Q+R +G ++
Sbjct: 163 -------GETKPAKPASLEKEPGKNNSWLRITLTEGRNRQVRRMFEAVGLEVL 208
>gnl|CDD|31381 COG1188, COG1188, Ribosome-associated heat shock protein implicated
in the recycling of the 50S subunit (S4 paralog)
[Translation, ribosomal structure and biogenesis].
Length = 100
Score = 34.9 bits (80), Expect = 0.035
Identities = 19/102 (18%), Positives = 42/102 (41%), Gaps = 22/102 (21%)
Query: 13 ENDEENMRLDRWFKNHYPHINFVNL-------QKILRSGQVRVDKKRVKFNNRIQSGQVV 65
+ D + MRLD+W ++++ G+V+V+ +R K + ++ G ++
Sbjct: 3 DKDADRMRLDKWLW-------AARFIKRRSLAKEMIEGGRVKVNGQRAKPSKEVKVGDIL 55
Query: 66 RIPPVINALNHIIKEQKILDSSVNLTKHSDFLKSILLYEDSK 107
I + K+L ++ LLYE+++
Sbjct: 56 TI-----RFGNKEFTVKVLALGEQRRPAE---EARLLYEETE 89
>gnl|CDD|147225 pfam04947, Pox_VLTF3, Poxvirus Late Transcription Factor VLTF3
like. Members of this family are approximately 26 KDa,
and are involved in trans-activator of late
transcription.
Length = 171
Score = 33.0 bits (76), Expect = 0.11
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 50 KKRVKFNN---RIQSGQVVRIPP-VINALNHIIKEQKILDSSVNLTKHSDFLKSI 100
+ + F N R+Q Q IP V L +K+ I V TK DFLK +
Sbjct: 12 NRLIHFRNCLRRLQGKQTTTIPDKVYEELRKKLKKYNIDTDDVTTTKVLDFLKKL 66
>gnl|CDD|29105 cd00165, S4, S4/Hsp/ tRNA synthetase RNA-binding domain; The
domain surface is populated by conserved, charged
residues that define a likely RNA-binding site; Found
in stress proteins, ribosomal proteins and tRNA
synthetases; This may imply a hitherto unrecognized
functional similarity between these three protein
classes..
Length = 70
Score = 32.2 bits (73), Expect = 0.21
Identities = 13/68 (19%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 19 MRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNN-RIQSGQVVRIPPVINALNHI 77
MRLD+ + +++++ G V V+ K V + +++ G V+ + + +
Sbjct: 1 MRLDKILARLGLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEEDIV 60
Query: 78 IKEQKILD 85
+++K+L
Sbjct: 61 YEDKKLLV 68
>gnl|CDD|144902 pfam01479, S4, S4 domain. The S4 domain is a small domain
consisting of 60-65 amino acid residues that was
detected in the bacterial ribosomal protein S4,
eukaryotic ribosomal S9, two families of pseudouridine
synthases, a novel family of predicted RNA methylases,
a yeast protein containing a pseudouridine synthetase
and a deaminase domain, bacterial tyrosyl-tRNA
synthetases, and a number of uncharacterized, small
proteins that may be involved in translation
regulation. The S4 domain probably mediates binding to
RNA.
Length = 48
Score = 29.8 bits (68), Expect = 1.2
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 19 MRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNN-RIQSGQVV 65
MRLD+ + ++++R G VRV+ K VK + R++ G V+
Sbjct: 1 MRLDKVLARLGLASSRSEARQLIRHGHVRVNGKVVKDPSYRVKPGDVI 48
>gnl|CDD|145350 pfam02145, Rap_GAP, Rap/ran-GAP.
Length = 187
Score = 29.5 bits (67), Expect = 1.2
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 202 LLKKSHIGGDYVHVVKQ-NEKGANYAI--SHF 230
L KK HIG D V+++ + K N S F
Sbjct: 73 LEKKRHIGNDIVNIIFNESGKPFNPDTIKSQF 104
>gnl|CDD|38891 KOG3687, KOG3687, KOG3687, Tuberin - Rap/ran-GTPase-activating
protein [Cell cycle control, cell division, chromosome
partitioning, Signal transduction mechanisms].
Length = 1697
Score = 28.2 bits (62), Expect = 3.5
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 203 LKKSHIGGDYVHVVKQNEKGANY 225
KK HIG D+V ++ NE G Y
Sbjct: 1539 KKKRHIGNDFVSII-YNESGEEY 1560
>gnl|CDD|35589 KOG0368, KOG0368, KOG0368, Acetyl-CoA carboxylase [Lipid transport
and metabolism].
Length = 2196
Score = 27.6 bits (61), Expect = 4.6
Identities = 11/79 (13%), Positives = 30/79 (37%)
Query: 130 DGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSLVWG 189
G + ++ + RL + + ++ +A+ LT + +QK +
Sbjct: 2067 KGVISKVLEWTESRRFFYWRLRRRLAEDQLLKEILSASPDLTYKEKQAMLQKWFEESEGA 2126
Query: 190 IPKNKKECIANWLLKKSHI 208
+ + + W+ ++S I
Sbjct: 2127 VKWEDDQQVVTWIEEQSTI 2145
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.323 0.138 0.430
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,352,088
Number of extensions: 227304
Number of successful extensions: 471
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 19
Length of query: 346
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 251
Effective length of database: 4,210,882
Effective search space: 1056931382
Effective search space used: 1056931382
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.1 bits)