RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018391
(356 letters)
>gnl|CDD|177922 PLN02284, PLN02284, glutamine synthetase.
Length = 354
Score = 780 bits (2016), Expect = 0.0
Identities = 318/354 (89%), Positives = 336/354 (94%)
Query: 1 MSLLNDLLNLNLSESTEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSST 60
MSLL+DL+NLNLS+ST+K+IAEY+WIGGSGMDLRSKARTLP P TDP+KLPKWNYDGSST
Sbjct: 1 MSLLSDLINLNLSDSTDKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSST 60
Query: 61 NQAPGDDSEVILYPQTVFKDPFRRGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVV 120
QAPG+DSEVILYPQ +FKDPFR GNNILVMCDAYTPAGEPIPTNKR AAK+F HPDV
Sbjct: 61 GQAPGEDSEVILYPQAIFKDPFRGGNNILVMCDAYTPAGEPIPTNKRAKAAKIFSHPDVA 120
Query: 121 AEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACL 180
AEEPWYGIEQEYTLLQKD+ WPLGWPVGGYPGPQGPYYCGVGADKA GRDIV++HYKACL
Sbjct: 121 AEEPWYGIEQEYTLLQKDVKWPLGWPVGGYPGPQGPYYCGVGADKAFGRDIVDAHYKACL 180
Query: 181 YAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIK 240
YAGINISGINGEVMPGQWEFQVGP VGIS+GDQLW+ARYILERITEIAGVV+SFDPKPI
Sbjct: 181 YAGINISGINGEVMPGQWEFQVGPVVGISAGDQLWVARYILERITEIAGVVVSFDPKPIP 240
Query: 241 GDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGNERRLTGRHETAD 300
GDWNGAGAH NYSTKSMR DGG +VIKKAIEKLG RH EHIAAYGEGNERRLTG+HETAD
Sbjct: 241 GDWNGAGAHTNYSTKSMREDGGYEVIKKAIEKLGLRHKEHIAAYGEGNERRLTGKHETAD 300
Query: 301 INTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW 354
INTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW
Sbjct: 301 INTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW 354
>gnl|CDD|178603 PLN03036, PLN03036, glutamine synthetase; Provisional.
Length = 432
Score = 640 bits (1651), Expect = 0.0
Identities = 268/353 (75%), Positives = 309/353 (87%)
Query: 4 LNDLLNLNLSESTEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSSTNQA 63
+ DLLNL+ + T+++IAEY+WIGGSG+DLRSK+RT+ P P++LPKWNYDGSST QA
Sbjct: 64 VEDLLNLDTTPYTDRIIAEYIWIGGSGIDLRSKSRTISKPVEHPSELPKWNYDGSSTGQA 123
Query: 64 PGDDSEVILYPQTVFKDPFRRGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEE 123
PG+DSEVILYPQ +FKDPFR GNNILV+CD YTPAGEPIPTNKR AA++F + VV E
Sbjct: 124 PGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNKKVVDEV 183
Query: 124 PWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAG 183
PW+GIEQEYTLLQ+++ WPLGWPVG YPGPQGPYYCG GADK+ GRDI ++HYKACLYAG
Sbjct: 184 PWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDISDAHYKACLYAG 243
Query: 184 INISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDW 243
INISG NGEVMPGQWE+QVGP VGI +GD +W +RYILERITE AGVVL+ DPKPI+GDW
Sbjct: 244 INISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYILERITEQAGVVLTLDPKPIEGDW 303
Query: 244 NGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGNERRLTGRHETADINT 303
NGAG H NYSTKSMR +GG +VIKKAI L RH EHI+AYGEGNERRLTG+HETA I+T
Sbjct: 304 NGAGCHTNYSTKSMREEGGFEVIKKAILNLSLRHKEHISAYGEGNERRLTGKHETASIDT 363
Query: 304 FSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWKP 356
FSWGVANRG SIRVGRDTEK+GKGY EDRRPASNMDPY+VTS++AETTILW+P
Sbjct: 364 FSWGVANRGCSIRVGRDTEKKGKGYLEDRRPASNMDPYIVTSLLAETTILWEP 416
>gnl|CDD|215731 pfam00120, Gln-synt_C, Glutamine synthetase, catalytic domain.
Length = 259
Score = 254 bits (652), Expect = 7e-84
Identities = 85/264 (32%), Positives = 123/264 (46%), Gaps = 22/264 (8%)
Query: 103 PTNKRFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWP-VGGYPGPQGPYYCGV 161
P + R + + P++G EQE+ L D P G P GGYP P+GPYY G
Sbjct: 1 PRDPRSILKRALARLASLGYTPYFGPEQEFFLF--DDVRPGGGPPPGGYPDPRGPYYGGY 58
Query: 162 GADKAL--GRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARY 219
L RDI KA AGI + GI+ EV PGQ E + + + D L + +Y
Sbjct: 59 FPVAPLDEARDIRRDIVKALEAAGIPVEGIHHEVAPGQHEIDLRFADALEAADNLQLFKY 118
Query: 220 ILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRN--------DGGIDVIKKAIE 271
+++R+ E G+ +F PKPI GD NG+G H + S ++ DG + + A
Sbjct: 119 VVKRVAEKHGLTATFMPKPIFGD-NGSGMHTHQSLWDRKDGKNLFADGDGYAGLSETARH 177
Query: 272 KLG--KRHGEHIAAY---GEGNERRLTGRHETADINTFSWGVANRGASIRVGRDTEKEGK 326
+G +H I AY + +RL T +WGV NR ASIR+ R +
Sbjct: 178 FIGGILKHAPAITAYTAPTVNSYKRLVP--GTEAPVYIAWGVRNRSASIRIPRGGGPKA- 234
Query: 327 GYFEDRRPASNMDPYVVTSMIAET 350
G EDR P + +PY+ + +
Sbjct: 235 GRVEDRLPDPDANPYLALAALLAA 258
>gnl|CDD|223252 COG0174, GlnA, Glutamine synthetase [Amino acid transport and
metabolism].
Length = 443
Score = 219 bits (561), Expect = 6e-68
Identities = 88/353 (24%), Positives = 138/353 (39%), Gaps = 29/353 (8%)
Query: 17 EKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNY--DGSSTNQAPG-DDSEVILY 73
+ + +G+ LR K P + +L + DGSS G +S+++L
Sbjct: 14 GVKFVDLRFTDLNGV-LRGKTIPAEKPVSVLAQLFEGGVVFDGSSIAGFEGIGESDMVLK 72
Query: 74 P--QTVFKDPFRRGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEE----PWYG 127
P T+ DP+R G V+CD Y P G P P + R + + +E G
Sbjct: 73 PDLSTLVVDPWREGPTARVLCDVYDPDGTPYPRDPRSVLKRAL---ARLKDEGLAPAVVG 129
Query: 128 IEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINIS 187
E E+ L +D G P +G Y+ D+A D +A AGI I
Sbjct: 130 PELEFFLFDRD-GRDPDG---GRPADKGGYFDVAPLDEA--EDFRRDIVEALEAAGIEIE 183
Query: 188 GINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGD-WNGA 246
I+ EV PGQ+E + + + DQ+ + +Y+++ + E G+ +F PKP GD +G
Sbjct: 184 AIHHEVAPGQFEINLRFDDALKAADQIVIFKYVVKEVAEKHGLTATFMPKPFFGDNGSGM 243
Query: 247 GAHANYSTKSMRN--------DGGIDVIKKAIEKLGKRHGEHIAAYGEG-NERRLTGRHE 297
H + K N G + I + K A N + G
Sbjct: 244 HVHQSLWDKDGGNLFADEDGYAGLSETALHFIGGILKHAPALTAITAPTVNSYKRLGVPY 303
Query: 298 TADINTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAET 350
+WGV NR AS+R+ E R P + +PY+ + I
Sbjct: 304 EWAPTYIAWGVRNRSASVRIPASGANGKARRVEFRVPDPDANPYLAFAAILAA 356
>gnl|CDD|217811 pfam03951, Gln-synt_N, Glutamine synthetase, beta-Grasp domain.
Length = 84
Score = 70.2 bits (173), Expect = 2e-15
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 11/88 (12%)
Query: 17 EKVIAEYVWIGGSGM--DLRSKARTLPAPTTDPTKLPKWNYDGSST-NQAPGDDSEVILY 73
+ + G +R A L D + +DGSS AP ++S++ L
Sbjct: 1 GVKFVDLRFTDILGRLKHVRIPATEL---DEDAFEEG-IGFDGSSIEGFAPINESDMYLK 56
Query: 74 P--QTVFKDPFRR--GNNILVMCDAYTP 97
P T + DPFR G V+CD Y P
Sbjct: 57 PDPSTAYIDPFRPDPGKTARVICDVYDP 84
>gnl|CDD|233073 TIGR00653, GlnA, glutamine synthetase, type I. Alternate name:
glutamate--ammonia ligase. This model represents the
dodecameric form, which can be subdivided into 1-alpha
and 1-beta forms. The phylogeny of the 1-alpha and
1-beta forms appears polyphyletic. E. coli,
Synechocystis PCC6803, Aquifex aeolicus, and the
crenarcheon Sulfolobus acidocaldarius have form 1-beta,
while Bacillus subtilis, Thermotoga maritima, and
various euryarchaea has form 1-alpha. The 1-beta
dodecamer from the crenarcheon Sulfolobus acidocaldarius
differs from that in E. coli in that it is not regulated
by adenylylation [Amino acid biosynthesis, Glutamate
family].
Length = 459
Score = 70.8 bits (174), Expect = 2e-13
Identities = 76/320 (23%), Positives = 130/320 (40%), Gaps = 39/320 (12%)
Query: 55 YDGSSTNQAPG-DDSEVILYP--QTVFKDPFRRGNNILVMCDAYTPA-GEPIPTNKRFNA 110
+DGSS G ++S+++L P T DP+R + V+CD Y P GEP + R A
Sbjct: 47 FDGSSIRGFQGIEESDMLLKPDPSTAVIDPWRAEKTLRVICDVYEPFTGEPYERDPRSIA 106
Query: 111 AKVFGH-PDVVAEEPWYGIEQEYTLLQKDINWPLGW-----------------PVGGY-P 151
+ + + + ++G E E+ L L GY P
Sbjct: 107 KRAEEYLKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEGRWNEESGNRGYKP 166
Query: 152 GPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSG 211
+G Y+ D A+ DI G ++ + EV GQ E + +
Sbjct: 167 RDKGGYFPVAPTDTAV--DIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTA 224
Query: 212 DQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYS-----TKSMRNDGGIDVI 266
D + +Y+++ + G +F PKP+ GD NG+G H + S + +
Sbjct: 225 DDIQTYKYVVKNVARKHGKTATFMPKPLFGD-NGSGMHCHQSLWKDGENLFAGEEYAGLS 283
Query: 267 KKAIEKLGK--RHGEHIAAYGE---GNERRLTGRHETADINTFSWGVANRGASIRVGRDT 321
+ A+ +G +H + +AA+ + +RL +E A + ++ NR A IR+
Sbjct: 284 ETALYYIGGILKHAKALAAFTNPTVNSYKRLVPGYE-APVY-LAYSARNRSALIRIPASG 341
Query: 322 EKEGKGYFEDRRPASNMDPY 341
+ K E R P + +PY
Sbjct: 342 NPKAK-RIEFRFPDPSANPY 360
>gnl|CDD|234109 TIGR03105, gln_synth_III, glutamine synthetase, type III. This
family consists of the type III isozyme of glutamine
synthetase, originally described in Rhizobium meliloti,
where types I and II also occur.
Length = 435
Score = 45.1 bits (107), Expect = 3e-05
Identities = 69/312 (22%), Positives = 113/312 (36%), Gaps = 45/312 (14%)
Query: 62 QAPGD-DSEVILYPQTVFKDPFRRGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVV 120
Q+P D D I ++ + P++ G V D + G+P P R + +
Sbjct: 54 QSPADPDLMAIPDLDSLTQLPWQPGVA-WVAADLH-VNGKPYPQAPRVVLKRQLAEAAEL 111
Query: 121 AEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGAD-KAL--GRDIVNSHYK 177
G+E E+ LL++D + L P Y D + L D++
Sbjct: 112 GLTLNTGVECEFFLLRRDEDGSLS-IADRADTLAKPCY-----DQRGLMRRYDVLTEISD 165
Query: 178 ACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPK 237
A G + + E GQ+E +++ D+ RY+++ I E G+ +F PK
Sbjct: 166 AMNALGWDPYQNDHEDANGQFEMNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPK 225
Query: 238 PIKGDWNGAGAHANYSTKSMRNDGGIDVIKKA-------IEKLGK-------RHGEHIAA 283
P D G G H + S+ ++ G ++ + KL H + A
Sbjct: 226 PFA-DLTGNGCHFHL---SLWDEDGRNLFADDSDPNGLGLSKLAYHFIGGILHHAPALCA 281
Query: 284 --------YGEGNERRLTGRHETADINTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPA 335
Y N R T T N S+G NR +R+ G FE R
Sbjct: 282 VLAPTVNSYKRLNAPR-TTSGATWAPNFISYGGNNRTHMVRI------PDPGRFELRLAD 334
Query: 336 SNMDPYVVTSMI 347
+PY+ + I
Sbjct: 335 GAANPYLAQAAI 346
>gnl|CDD|112623 pfam03819, MazG, MazG nucleotide pyrophosphohydrolase domain. This
domain is about 100 amino acid residues in length. It is
found in the MazG protein from E. coli. It contains four
conserved negatively charged residues that probably form
an active site or metal binding site. This domain is
found in isolation in some proteins as well as
associated with pfam00590. This domain is clearly
related to pfam01503 another pyrophosphohydrolase
involved in histidine biosynthesis. This family may be
structurally related to the NUDIX domain pfam00293
(Bateman A pers. obs.).
Length = 74
Score = 28.7 bits (65), Expect = 0.90
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 13/70 (18%)
Query: 216 MARYILERITEIAGVVLSFDPKPIK---GD--WNGAGAHANYSTKSMRNDGGI---DVIK 267
+ Y+LE + E+A + D ++ GD HAN +GG DV
Sbjct: 6 LLPYLLEEVYEVAEAIEKEDLDNLEEELGDVLLQ-VLFHAN----LAEEEGGFDLEDVAA 60
Query: 268 KAIEKLGKRH 277
+ +EKL +RH
Sbjct: 61 RIVEKLIRRH 70
>gnl|CDD|181884 PRK09469, glnA, glutamine synthetase; Provisional.
Length = 469
Score = 30.9 bits (70), Expect = 1.1
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 212 DQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYS 253
D++ + +Y++ + G +F PKP+ GD NG+G H + S
Sbjct: 234 DEIQIYKYVVHNVAHAFGKTATFMPKPMFGD-NGSGMHCHMS 274
>gnl|CDD|217630 pfam03592, Terminase_2, Terminase small subunit. Packaging of
double-stranded viral DNA concatemers requires
interaction of the prohead with virus DNA. This process
is mediated by a phage-encoded DNA recognition and
terminase protein. The terminase enzymes described so
far, which are hetero-oligomers composed of a small and
a large subunit, do not have a significant level of
sequence homology. The small terminase subunit is
thought to form a nucleoprotein structure that helps to
position the terminase large subunit at the packaging
initiation site.
Length = 141
Score = 28.8 bits (65), Expect = 2.2
Identities = 20/94 (21%), Positives = 30/94 (31%), Gaps = 29/94 (30%)
Query: 217 ARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIK--------K 268
A +LE +TEIA G + + K K
Sbjct: 64 ADEVLEELTEIA-----------------RGDETELVLVGTKEGEVEKIEKKVKLKDRLK 106
Query: 269 AIEKLGKRHGEHIAAYGEGNERRLTGRHETADIN 302
A+E LGK +G + + E + ADI+
Sbjct: 107 ALELLGKHYGL----FTDKVEVEGEVKKLKADID 136
>gnl|CDD|233049 TIGR00608, radc, DNA repair protein radc. The genes in this family
for which the functions are known have an as yet porrly
defined role in determining sensitivity to DNA damaging
agents such as UV irradiation. 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 = 218
Score = 29.3 bits (66), Expect = 2.8
Identities = 11/44 (25%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 62 QAPGDDSEVILYPQTVFKDPFRRGNNILVMCDAYTPAGEPIPTN 105
G + V ++P+ +FK+ + + L++ + P+GEP P+
Sbjct: 136 VFIGTVNHVPVHPREIFKEALKLSASALILAHNH-PSGEPSPSQ 178
>gnl|CDD|179564 PRK03352, PRK03352, DNA polymerase IV; Validated.
Length = 346
Score = 29.2 bits (66), Expect = 3.3
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 34 RSKARTLPAPTTDP 47
R+K R LP PTTDP
Sbjct: 299 RTKIRKLPEPTTDP 312
>gnl|CDD|222587 pfam14196, ATC_hydrolase, L-2-amino-thiazoline-4-carboxylic acid
hydrolase. This family of enzymes catalyzes the
conversion of L-2-amino-delta2-thiazoline-4-carboxylic
acid (L-ATC) to N-carbamoyl-L-cysteine. It cleaves the
carbon-sulphur bond in the ring structure of L-ATC to
produce N-carbamoyl-L-cysteine.
Length = 149
Score = 28.1 bits (63), Expect = 4.1
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 264 DVIKKAIEKLGKRHGEHIAAYGEGNERRL 292
+I++AIE G+ G+ AA G L
Sbjct: 33 AIIREAIEAFGEERGKAFAAKAPGKPDDL 61
>gnl|CDD|224516 COG1600, COG1600, Uncharacterized Fe-S protein [Energy production
and conversion].
Length = 337
Score = 28.9 bits (65), Expect = 4.6
Identities = 14/72 (19%), Positives = 25/72 (34%), Gaps = 6/72 (8%)
Query: 283 AYGEGNERRLT--GRHETADINTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDP 340
Y G E I+ ++WG V R+ K + Y R ++
Sbjct: 74 NYPPKLVEAPASLGDPEKGYISRYAWGRD----YHDVLRERLKALEEYIASRAGDLDVRS 129
Query: 341 YVVTSMIAETTI 352
+V T ++E +
Sbjct: 130 FVDTGPVSERAL 141
>gnl|CDD|185484 PTZ00155, PTZ00155, 40S ribosomal protein S9; Provisional.
Length = 181
Score = 28.1 bits (63), Expect = 5.5
Identities = 11/40 (27%), Positives = 21/40 (52%)
Query: 207 GISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGA 246
G+ + ++W +Y L +I + A +L+ D K K + G
Sbjct: 35 GLKNKREIWRVQYTLAKIRKAARELLTLDEKDPKRLFEGE 74
>gnl|CDD|217058 pfam02476, US2, US2 family. This is a family of unique short (US)
region proteins from the herpesvirus strain. The US2
family have no known function.
Length = 124
Score = 27.0 bits (60), Expect = 7.1
Identities = 14/33 (42%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 93 DAYTPAGEPIPTNKRFNAAKVFGHPDVVAEEPW 125
D P E IP KR AAKV P A W
Sbjct: 21 DLCAPVLEHIPGPKRLVAAKV---PGAWAGASW 50
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
0.316 0.137 0.431
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,628,009
Number of extensions: 1812977
Number of successful extensions: 1486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1469
Number of HSP's successfully gapped: 22
Length of query: 356
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 258
Effective length of database: 6,590,910
Effective search space: 1700454780
Effective search space used: 1700454780
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 (21.5 bits)
S2: 60 (26.9 bits)