RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10975
(574 letters)
>gnl|CDD|216324 pfam01139, UPF0027, Uncharacterized protein family UPF0027.
Length = 419
Score = 336 bits (864), Expect = e-110
Identities = 151/423 (35%), Positives = 220/423 (52%), Gaps = 69/423 (16%)
Query: 37 VKQIANVAALPGIVGRSVGLPDVHS---------VPSTQWLSDNT--------MRS---- 75
++Q+ANVA+LPGIV +PDVH + +S MR
Sbjct: 18 IEQLANVASLPGIVKHVAAMPDVHPGYGFPIGGVAATDGAISPGGVGVDIGCGMRLLRTN 77
Query: 76 --------------SNIWKRSPLTLGAGNH----YAEIQIVDEIYDKWAASK-MGIEDVG 116
I++ P +G+G +E+ V E +WA + G ++
Sbjct: 78 LTAEDLRPKLKKLLDAIFRAVPSGVGSGGKIRLSKSELDEVLEEGAEWAVEEGYGWDEGA 137
Query: 117 QVCVMIHSGSRGFGHQVAT--AGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGS 174
+ Q+ T GNH+ EIQ+VDEI+D+ AA G+++ GQV +MIHSGS
Sbjct: 138 DPEKVSEKAKERGLPQLGTLGGGNHFIEIQVVDEIFDEEAAKAFGLDEKGQVWLMIHSGS 197
Query: 175 RGFGHQVATDALVQMEKAMKRDNIETNDRQLACARINSNKNK------AFAKQFNTTPDD 228
RG GHQ+ATD L KAMK+ I+ DRQLA ++S + + A A +
Sbjct: 198 RGLGHQIATDYLRLARKAMKKYGIKLPDRQLAYLPLDSEEGQDYLAAMAAAANYAWANRQ 257
Query: 229 LDMHVIYDAFAKQFNTTPDDLDMHVIYDVSHNIAKTEEHMVDGKQKTLLVHRKGSTRAFP 288
L H + +AF + F DL++ ++YDV+HN AK EEH K + L VHRKG+TRAF
Sbjct: 258 LIAHRVREAFEEVFGGP--DLELRLVYDVAHNYAKKEEH----KGRELWVHRKGATRAF- 310
Query: 289 PHHPLIPVDYQLTGQPVLIGGTMGTCSYVLTGTEKGMQETFGSTCHGAGRALSRAKSRRN 348
GQPVLI G+MGT SY++ GT M E+FGS HGAGR +SR+K+++
Sbjct: 311 ------------VGQPVLIPGSMGTGSYIVVGTGNAMAESFGSASHGAGRVMSRSKAKKK 358
Query: 349 LDYQEVLNKLESQGISIRVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAV 408
+E+ L G +R S K V++EAPE+YK++ +VV+ G+ + +L+P+ V
Sbjct: 359 FSGEELKEAL--AGGIVRCRSRKGVLDEAPEAYKDIDEVVEAQEEAGLVRVVARLKPLGV 416
Query: 409 IKG 411
IKG
Sbjct: 417 IKG 419
Score = 69.6 bits (171), Expect = 1e-12
Identities = 36/86 (41%), Positives = 51/86 (59%), Gaps = 13/86 (15%)
Query: 462 AED-KEHFERLAQSMFDHIPVGVGSKGIIPMNARDLEEALEMGMDWSLREGYIWAEDKEH 520
AED + ++L ++F +P GVGS G I ++ +L+E LE G +W++ EGY W E
Sbjct: 80 AEDLRPKLKKLLDAIFRAVPSGVGSGGKIRLSKSELDEVLEEGAEWAVEEGYGWDEG--- 136
Query: 521 CEEYGRMLNADPSKVSMRAKKRGLPQ 546
ADP KVS +AK+RGLPQ
Sbjct: 137 ---------ADPEKVSEKAKERGLPQ 153
Score = 51.1 bits (123), Expect = 9e-07
Identities = 20/49 (40%), Positives = 32/49 (65%)
Query: 416 ERLAQSMFDHIPVGVGSKGIIPMNARDLEEALEMGMDWSLREGYIWAED 464
++L ++F +P GVGS G I ++ +L+E LE G +W++ EGY W E
Sbjct: 88 KKLLDAIFRAVPSGVGSGGKIRLSKSELDEVLEEGAEWAVEEGYGWDEG 136
>gnl|CDD|224604 COG1690, RtcB, Uncharacterized conserved protein [Function
unknown].
Length = 432
Score = 282 bits (723), Expect = 2e-89
Identities = 123/346 (35%), Positives = 179/346 (51%), Gaps = 39/346 (11%)
Query: 74 RSSNIWKRSPLTLGAGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFGHQV 133
+ LT GA + V + + + + RG G Q+
Sbjct: 118 LPDRNTLQEVLTGGARWAVEQGLGVAL-DLERCEDGGVMTGADAAKISDRALQRGLG-QL 175
Query: 134 AT--AGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFGHQVATDALVQMEK 191
+ +GNH+ E+Q VD +YD+ AA+ MG+ G V VMIH+GSRG GHQ+ATD + E+
Sbjct: 176 GSLGSGNHFLEVQAVDRVYDEEAAAPMGL-AEGTVWVMIHTGSRGLGHQIATDFVRLAEQ 234
Query: 192 AMKRDNIETNDRQLACARINSNKNKAF------AKQFNTTPDDLDMHVIYDAFAKQFNTT 245
AM R I DRQLAC ++S +A+ A + L + A + +
Sbjct: 235 AMGRYGIAVPDRQLACVPVDSEDGQAYLAAMAAAANYARANRQLITERVRRALQEVTD-- 292
Query: 246 PDDLDMHVIYDVSHNIAKTEEHMVDGKQKTLLVHRKGSTRAFPPHHPLIPVDYQLTGQPV 305
++YDV HN+AK E H + ++VHRKG+TRAF GQP
Sbjct: 293 -------LLYDVHHNLAKKETHNG----EEVIVHRKGATRAF-------------VGQPG 328
Query: 306 LIGGTMGTCSYVLTGTEKGMQETFGSTCHGAGRALSRAKSRRNLDYQEVLNKLESQGISI 365
LI G+MGT SY++ G FGST HGAGR LSR ++R L +EV + L++ GI +
Sbjct: 329 LIPGSMGTASYIVRGVGNEE--AFGSTSHGAGRVLSRTAAKRKLSGKEVQDALKATGIVV 386
Query: 366 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 411
R S + V++EAPE+YK++ DV++ H G+ + +LRPV V+KG
Sbjct: 387 RATSERGVIDEAPEAYKDIDDVIEASHQSGLVEVVARLRPVGVVKG 432
Score = 69.3 bits (170), Expect = 2e-12
Identities = 34/99 (34%), Positives = 50/99 (50%), Gaps = 4/99 (4%)
Query: 449 MGMDWSLREGYIWAED-KEHFERLAQSMFDHIPVGVGSKGIIPMNARDLEEALEMGMDWS 507
G+ L + ED + + + IP GVG+ G++P L+E L G W+
Sbjct: 79 CGV--RLLRTNLDREDLQPRLPAVMDRLDRAIPRGVGTAGVLPDR-NTLQEVLTGGARWA 135
Query: 508 LREGYIWAEDKEHCEEYGRMLNADPSKVSMRAKKRGLPQ 546
+ +G A D E CE+ G M AD +K+S RA +RGL Q
Sbjct: 136 VEQGLGVALDLERCEDGGVMTGADAAKISDRALQRGLGQ 174
>gnl|CDD|181972 PRK09588, PRK09588, hypothetical protein; Reviewed.
Length = 376
Score = 105 bits (265), Expect = 1e-24
Identities = 80/285 (28%), Positives = 120/285 (42%), Gaps = 54/285 (18%)
Query: 137 GNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFGH-----QVATDAL--VQM 189
GNH+AE+Q VDEIYD + +G+ D Q+ +++HSGSRG G VA+ +
Sbjct: 135 GNHFAELQQVDEIYDAELFALLGL-DADQLLLLVHSGSRGLGQAILRRHVASFGHNGLPE 193
Query: 190 EKAMKRDNIETNDRQLACARINSNKNKAFAKQFNTTPDDLDMHVIYDAFAKQFNTTPDDL 249
+ +D LA AR N +I +Q +
Sbjct: 194 GSDDALAYLAEHDDALAFARANR-------------------QLIARRILQQLRAEGE-- 232
Query: 250 DMHVIYDVSHNIAKTEEHMVDGKQKTLLVHRKGSTRAFPPHHPLIPVDYQLTGQPVLIGG 309
+ DV+HN E V G+ L HRKG+T P D V+I G
Sbjct: 233 ---PVLDVAHNF--VEPCQVGGEDGWL--HRKGAT----------PSD----QGLVVIPG 271
Query: 310 TMGTCSYVLTGTEKGMQETFGSTCHGAGRALSRAKSRRNLDYQEVLNKLESQGISIRV-- 367
+ G SY++ +E+ S HGAGR R + + L + + +L + RV
Sbjct: 272 SRGDYSYLVKPVAS--EESLFSLAHGAGRKWMRTECKGRLAAKFTVTQLSRTPLGSRVIC 329
Query: 368 ASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGI 412
+L+ EEAPE+YK++ V+ G+ +LRPV K
Sbjct: 330 RDRQLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKTS 374
Score = 30.3 bits (69), Expect = 2.7
Identities = 11/24 (45%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 37 VKQIANVAALPGIVGRSVGLPDVH 60
++Q+ A LPG+ R VG+PD+H
Sbjct: 27 IQQLHTTAKLPGMR-RVVGMPDLH 49
>gnl|CDD|213769 TIGR03073, release_rtcB, release factor H-coupled RctB family
protein. Members of this family are related to RctB.
RctB a protein of known structure but unknown function
that often is encoded near RNA cyclase and therefore is
suggested to be a tRNA or mRNA processing enzyme. This
family of RctB-like proteins in encoded upstream of, and
apparently is translationally coupled to, the putative
peptide chain release factor RF-H (TIGR03072), product
of the prfH gene. Note that a large deletion at the
junction between this gene and the prfH gene in
Escherichia coli K-12 marks both as probable pseudogenes
[Protein synthesis, Other].
Length = 356
Score = 87.1 bits (216), Expect = 2e-18
Identities = 81/285 (28%), Positives = 130/285 (45%), Gaps = 46/285 (16%)
Query: 127 RGFGHQVAT--AGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFGHQVATD 184
GF + T GNH+AE+Q VD+IYD A + +G+ D Q+ +++HSGSRG G +
Sbjct: 112 HGFRSSLGTIGGGNHFAELQQVDQIYDADALATLGL-DAKQLLLLVHSGSRGLGQAI--- 167
Query: 185 ALVQMEKAMKRDNIETNDRQLACARINSNKNKA--FAKQFNTTPDDLDMHVIYDAFAKQF 242
L + + + A A + + A FAK + +I ++
Sbjct: 168 -LRRHVDYFGHNGLPEG--SPAAAAYLAQHDDALRFAKA--------NRQLIARRILQRL 216
Query: 243 NTTPDDLDMHVIYDVSHNIAKTEEHMVDGKQKTLLVHRKGSTRAFPPHHPLIPVDYQLTG 302
D L DV+HN+ ++G+ L HRKG+T P D
Sbjct: 217 RAKGDPL-----LDVNHNL--VSPATIEGEDGWL--HRKGAT----------PAD----Q 253
Query: 303 QPVLIGGTMGTCSYVLTGTEKGMQETFGSTCHGAGRALSRAKSRRNLDYQEVLNKLESQG 362
PV+I G+ G SY++ +E+ S HGAGR R++ + L + +++L
Sbjct: 254 GPVVIPGSRGDYSYLVQPVPS--EESLFSLAHGAGRKWMRSECKDRLAARFSVDQLRRTR 311
Query: 363 ISIRV--ASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRP 405
+ RV +L+ EEAPE+YK++ VV G+ K +L+P
Sbjct: 312 LGSRVICEDRQLIYEEAPEAYKSIDSVVGALLQAGLIKVVARLKP 356
Score = 57.5 bits (139), Expect = 8e-09
Identities = 25/55 (45%), Positives = 39/55 (70%), Gaps = 1/55 (1%)
Query: 79 WKRSPLTLGAGNHYAEIQIVDEIYDKWAASKMGIEDVGQVCVMIHSGSRGFGHQV 133
++ S T+G GNH+AE+Q VD+IYD A + +G+ D Q+ +++HSGSRG G +
Sbjct: 114 FRSSLGTIGGGNHFAELQQVDQIYDADALATLGL-DAKQLLLLVHSGSRGLGQAI 167
>gnl|CDD|225581 COG3039, COG3039, Transposase and inactivated derivatives, IS5
family [DNA replication, recombination, and repair].
Length = 230
Score = 33.3 bits (76), Expect = 0.23
Identities = 26/133 (19%), Positives = 36/133 (27%), Gaps = 28/133 (21%)
Query: 454 SLREGYIWAE--DKEHFERLAQSMFDHIPVGVGSKGIIPM------------NARDLEEA 499
L G + + + F A H P G+IP L
Sbjct: 73 KLSYGSLATKKGNSASFGYKA-----HTPEWGAPSGLIPRLVITAANAHTWEALNKLLLG 127
Query: 500 LEMGMDWSLREGYIWAEDKEHCEEYGRMLNADPSKVSMRAKKRGLP--QVSDRRGTGSSK 557
+GY E +E E +P M R + RG S+
Sbjct: 128 SVREERLYADKGYRGDETREELRE------HEPRDSIMLRAGRRRMLRLLQRARGLRISR 181
Query: 558 YCHGVGSIPARLE 570
G G AR+E
Sbjct: 182 RRMG-GETRARVE 193
>gnl|CDD|184694 PRK14468, PRK14468, ribosomal RNA large subunit methyltransferase
N; Provisional.
Length = 343
Score = 32.9 bits (75), Expect = 0.40
Identities = 34/124 (27%), Positives = 51/124 (41%), Gaps = 20/124 (16%)
Query: 347 RNLDYQEVLNKL----ESQGISIRVASPKLV---MEEAPESYKNVTDVVDTC---HAVGI 396
RNL E+L+++ +GIS R +V M E +Y+NV A+ +
Sbjct: 119 RNLTAAEILDQVLAVAGHEGISPREIR-NVVLMGMGEPLLNYENVLKAARIMLHPQALAM 177
Query: 397 SKKTFKLRPVAVIKGIY------LNERLAQSMFDHIPVGVGSKGIIPMNARD-LEEALEM 449
S + L V + KGI L RLA S+ H P + IIP R + E +
Sbjct: 178 SPRRVTLSTVGIPKGIRRLAEEDLGVRLALSL--HAPDEETRQRIIPTAHRYSIAEIMAA 235
Query: 450 GMDW 453
+
Sbjct: 236 VRHY 239
>gnl|CDD|190972 pfam04405, ScdA_N, Domain of Unknown function (DUF542). This
domain is always found in conjunction with the HHE
domain (pfam03794) at the N-terminus.
Length = 56
Score = 28.2 bits (64), Expect = 1.4
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 333 CHGAGRALSRAKSRRNLDYQEVLNKLES 360
C G +L+ A + LD +EVL +L +
Sbjct: 28 CGG-KVSLAEACKEKGLDPEEVLAELNA 54
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 29.7 bits (67), Expect = 3.6
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 16/85 (18%)
Query: 120 VMIHSGSRGFGHQVATA----G-----NHY----AEIQIVDEIYDKWAASKMGIEDVGQV 166
V++ GSRG G +A A G N++ A + DE+ D+ A + + D QV
Sbjct: 8 VLVTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALADELGDRAIALQADVTDREQV 67
Query: 167 CVMIHSGSRGFGHQVAT---DALVQ 188
M + + FG + T +AL
Sbjct: 68 QAMFATATEHFGKPITTVVNNALAD 92
>gnl|CDD|239429 cd03313, enolase, Enolase: Enolases are homodimeric enzymes that
catalyse the reversible dehydration of
2-phospho-D-glycerate to phosphoenolpyruvate as part of
the glycolytic and gluconeogenesis pathways. The
reaction is facilitated by the presence of metal ions.
Length = 408
Score = 29.8 bits (68), Expect = 4.8
Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 11/67 (16%)
Query: 435 IIPMNARDLEEALEMGMDWSLREGYIWAEDKEHFERLAQSMFDHIPVGVGSKGIIPMNAR 494
I+P+ A EAL MG AE +++ + + VG +G N
Sbjct: 162 IVPVGAPSFSEALRMG-----------AEVYHTLKKVLKKKGGLLATNVGDEGGFAPNLS 210
Query: 495 DLEEALE 501
EEAL+
Sbjct: 211 SNEEALD 217
>gnl|CDD|238980 cd02022, DPCK, Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24)
catalyzes the phosphorylation of dephosphocoenzyme A
(dCoA) to yield CoA, which is the final step in CoA
biosynthesis.
Length = 179
Score = 28.6 bits (65), Expect = 5.6
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 181 VATDALVQMEKAMKRDNIETNDRQLACARINS 212
V +Q+E+ MKRD + + A ARI S
Sbjct: 128 VDAPPEIQIERLMKRDGL---SEEEAEARIAS 156
>gnl|CDD|181536 PRK08674, PRK08674, bifunctional phosphoglucose/phosphomannose
isomerase; Validated.
Length = 337
Score = 29.2 bits (66), Expect = 6.4
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 434 GIIPMNARDLEEALEMGMDWSLREGYIWA--EDKEHFERLAQSMFDHIPVGVGS 485
G+IP + ++ E + + L EG K +RLA ++ IPV GS
Sbjct: 156 GLIPDKSAEVLETKIVLSE--LAEGLKEKVPTLKNLAKRLAGKLYGRIPVIYGS 207
>gnl|CDD|223500 COG0423, GRS1, Glycyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 558
Score = 29.3 bits (66), Expect = 6.8
Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 31/116 (26%)
Query: 403 LRP-VAVIKGIYLN-ERLAQSMFDHIPVGVGSKG------IIPMNA----RDLEEALEMG 450
LRP A +GI++N + L + + +P G+ G I P N R+ E+A E+
Sbjct: 163 LRPETA--QGIFVNFKNLLEFARNKLPFGIAQIGKSFRNEISPRNGLFRTREFEQA-EI- 218
Query: 451 MDWSLREGYIWAEDKEH--FERLAQSMFDHIPVGVGSKGIIPMNARDLEEALEMGM 504
E ++ E+KEH F + +P +G EEA+E G+
Sbjct: 219 ------EFFVDPEEKEHPKFNEVKDEKLPLLPREAQEEGT-------EEEAVEEGI 261
>gnl|CDD|234620 PRK00081, coaE, dephospho-CoA kinase; Reviewed.
Length = 194
Score = 28.1 bits (64), Expect = 9.2
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 181 VATDALVQMEKAMKRDNIETNDRQLACARINS 212
V Q+E+ M RD + + A A I S
Sbjct: 131 VDAPPETQLERLMARDGL---SEEEAEAIIAS 159
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
0.318 0.134 0.404
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 29,868,820
Number of extensions: 2947765
Number of successful extensions: 2873
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2851
Number of HSP's successfully gapped: 31
Length of query: 574
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 472
Effective length of database: 6,413,494
Effective search space: 3027169168
Effective search space used: 3027169168
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.6 bits)