RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 013994
(432 letters)
>gnl|CDD|178603 PLN03036, PLN03036, glutamine synthetase; Provisional.
Length = 432
Score = 898 bits (2322), Expect = 0.0
Identities = 395/432 (91%), Positives = 419/432 (96%)
Query: 1 MAQILAPSMQWQMRMPKYSNIASPMTTKMWSSLLMKQNKKGTNRSSAKFRVLALKSEDST 60
MAQILAPS Q QMR+PK S +A+PMT+K+WSSL++KQ KKGT + S KFRVLAL+SE+ST
Sbjct: 1 MAQILAPSPQCQMRVPKNSAVAAPMTSKLWSSLVLKQKKKGTAKVSGKFRVLALQSENST 60
Query: 61 VNRLEDLLNLDITPYTDKIIAEYIWIGGTGIDMRSKSKTISKPVEHPSELPKWNYDGSST 120
VNR+EDLLNLD TPYTD+IIAEYIWIGG+GID+RSKS+TISKPVEHPSELPKWNYDGSST
Sbjct: 61 VNRVEDLLNLDTTPYTDRIIAEYIWIGGSGIDLRSKSRTISKPVEHPSELPKWNYDGSST 120
Query: 121 GQAPGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVS 180
GQAPGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSN KV
Sbjct: 121 GQAPGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNKKVV 180
Query: 181 AEVPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACL 240
EVPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDI+DAHYKACL
Sbjct: 181 DEVPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDISDAHYKACL 240
Query: 241 YAGINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIE 300
YAGINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRY+LERITEQAGVVL+LDPKPIE
Sbjct: 241 YAGINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYILERITEQAGVVLTLDPKPIE 300
Query: 301 GDWNGAGCHTNYSTKSMREEGGYETIKKAILNLSLRHKEHISAYGEGNERRLTGKHETAS 360
GDWNGAGCHTNYSTKSMREEGG+E IKKAILNLSLRHKEHISAYGEGNERRLTGKHETAS
Sbjct: 301 GDWNGAGCHTNYSTKSMREEGGFEVIKKAILNLSLRHKEHISAYGEGNERRLTGKHETAS 360
Query: 361 IDSFSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAETTILWEPTLEA 420
ID+FSWGVANRGCSIRVGR+TEK+GKGYLEDRRPASNMDPY+VTSLLAETTILWEPTLEA
Sbjct: 361 IDTFSWGVANRGCSIRVGRDTEKKGKGYLEDRRPASNMDPYIVTSLLAETTILWEPTLEA 420
Query: 421 EALAAQKLALNV 432
EALAAQKL+LNV
Sbjct: 421 EALAAQKLSLNV 432
>gnl|CDD|177922 PLN02284, PLN02284, glutamine synthetase.
Length = 354
Score = 737 bits (1904), Expect = 0.0
Identities = 287/351 (81%), Positives = 320/351 (91%)
Query: 64 LEDLLNLDITPYTDKIIAEYIWIGGTGIDMRSKSKTISKPVEHPSELPKWNYDGSSTGQA 123
L DL+NL+++ TDKIIAEYIWIGG+G+D+RSK++T+ PV PS+LPKWNYDGSSTGQA
Sbjct: 4 LSDLINLNLSDSTDKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSSTGQA 63
Query: 124 PGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVSAEV 183
PGEDSEVILYPQAIFKDPFRGGNNILV+CD YTPAGEPIPTNKR +AA+IFS+ V+AE
Sbjct: 64 PGEDSEVILYPQAIFKDPFRGGNNILVMCDAYTPAGEPIPTNKRAKAAKIFSHPDVAAEE 123
Query: 184 PWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAG 243
PW+GIEQEYTLLQ++VKWPLGWPVG YPGPQGPYYCG GADK+FGRDI DAHYKACLYAG
Sbjct: 124 PWYGIEQEYTLLQKDVKWPLGWPVGGYPGPQGPYYCGVGADKAFGRDIVDAHYKACLYAG 183
Query: 244 INISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDW 303
INISG NGEVMPGQWE+QVGP VGI AGD +W +RY+LERITE AGVV+S DPKPI GDW
Sbjct: 184 INISGINGEVMPGQWEFQVGPVVGISAGDQLWVARYILERITEIAGVVVSFDPKPIPGDW 243
Query: 304 NGAGCHTNYSTKSMREEGGYETIKKAILNLSLRHKEHISAYGEGNERRLTGKHETASIDS 363
NGAG HTNYSTKSMRE+GGYE IKKAI L LRHKEHI+AYGEGNERRLTGKHETA I++
Sbjct: 244 NGAGAHTNYSTKSMREDGGYEVIKKAIEKLGLRHKEHIAAYGEGNERRLTGKHETADINT 303
Query: 364 FSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAETTILW 414
FSWGVANRG SIRVGR+TEK+GKGY EDRRPASNMDPYVVTS++AETTILW
Sbjct: 304 FSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW 354
>gnl|CDD|215731 pfam00120, Gln-synt_C, Glutamine synthetase, catalytic domain.
Length = 259
Score = 253 bits (648), Expect = 2e-82
Identities = 81/263 (30%), Positives = 123/263 (46%), Gaps = 20/263 (7%)
Query: 163 PTNKRHRAAEIFSNSKVSAEVPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAG 222
P + R + P+FG EQE+ L +V+ G P G YP P+GPYY G
Sbjct: 1 PRDPRSILKRALARLASLGYTPYFGPEQEFFLFD-DVRPGGGPPPGGYPDPRGPYYGGYF 59
Query: 223 ADKS--FGRDIADAHYKACLYAGINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYL 280
RDI KA AGI + G + EV PGQ E + + ++A D++ +Y+
Sbjct: 60 PVAPLDEARDIRRDIVKALEAAGIPVEGIHHEVAPGQHEIDLRFADALEAADNLQLFKYV 119
Query: 281 LERITEQAGVVLSLDPKPIEGDWNGAGCHTNYSTKSMR--------EEGGYETIKKAILN 332
++R+ E+ G+ + PKPI GD NG+G HT+ S + +G + A
Sbjct: 120 VKRVAEKHGLTATFMPKPIFGD-NGSGMHTHQSLWDRKDGKNLFADGDGYAGLSETARHF 178
Query: 333 LS--LRHKEHISAY---GEGNERRLTGKHETASIDSFSWGVANRGCSIRVGRETEKQGKG 387
+ L+H I+AY + +RL T + +WGV NR SIR+ R + G
Sbjct: 179 IGGILKHAPAITAYTAPTVNSYKRLVP--GTEAPVYIAWGVRNRSASIRIPRGGGPKA-G 235
Query: 388 YLEDRRPASNMDPYVVTSLLAET 410
+EDR P + +PY+ + L
Sbjct: 236 RVEDRLPDPDANPYLALAALLAA 258
>gnl|CDD|223252 COG0174, GlnA, Glutamine synthetase [Amino acid transport and
metabolism].
Length = 443
Score = 216 bits (552), Expect = 1e-65
Identities = 84/350 (24%), Positives = 135/350 (38%), Gaps = 23/350 (6%)
Query: 77 DKIIAEYIWIGGTGIDMRSKSKTISKPVEHPSELPKWNY--DGSSTGQAPG-EDSEVILY 133
+ + G+ +R K+ KPV ++L + DGSS G +S+++L
Sbjct: 14 GVKFVDLRFTDLNGV-LRGKTIPAEKPVSVLAQLFEGGVVFDGSSIAGFEGIGESDMVLK 72
Query: 134 P--QAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVSAEVP-WFGIEQ 190
P + DP+R G V+CD Y P G P P + R + K P G E
Sbjct: 73 PDLSTLVVDPWREGPTARVLCDVYDPDGTPYPRDPRSVLKRALARLKDEGLAPAVVGPEL 132
Query: 191 EYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTN 250
E+ L + P +G Y+ A D+ D +A AGI I +
Sbjct: 133 EFFLFDR-DGRDPDGG---RPADKGGYFDVAPLDE--AEDFRRDIVEALEAAGIEIEAIH 186
Query: 251 GEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGD-WNGAGCH 309
EV PGQ+E + + A D I +Y+++ + E+ G+ + PKP GD +G H
Sbjct: 187 HEVAPGQFEINLRFDDALKAADQIVIFKYVVKEVAEKHGLTATFMPKPFFGDNGSGMHVH 246
Query: 310 TNYSTKS-----MREEGGY---ETIKKAILNLSLRHKEHISAYGEG-NERRLTGKHETAS 360
+ K E+G ET I + + N + G +
Sbjct: 247 QSLWDKDGGNLFADEDGYAGLSETALHFIGGILKHAPALTAITAPTVNSYKRLGVPYEWA 306
Query: 361 IDSFSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAET 410
+WGV NR S+R+ +E R P + +PY+ + +
Sbjct: 307 PTYIAWGVRNRSASVRIPASGANGKARRVEFRVPDPDANPYLAFAAILAA 356
>gnl|CDD|217811 pfam03951, Gln-synt_N, Glutamine synthetase, beta-Grasp domain.
Length = 84
Score = 82.2 bits (204), Expect = 2e-19
Identities = 25/88 (28%), Positives = 35/88 (39%), Gaps = 11/88 (12%)
Query: 77 DKIIAEYIWIGGTGI--DMRSKSKTISKPVEHPSELPKWNYDGSST-GQAPGEDSEVILY 133
+ + G +R + + E E +DGSS G AP +S++ L
Sbjct: 1 GVKFVDLRFTDILGRLKHVRIPATELD---EDAFEEG-IGFDGSSIEGFAPINESDMYLK 56
Query: 134 P--QAIFKDPFRG--GNNILVICDTYTP 157
P + DPFR G VICD 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 = 72.4 bits (178), Expect = 1e-13
Identities = 79/321 (24%), Positives = 122/321 (38%), Gaps = 41/321 (12%)
Query: 115 YDGSS-TGQAPGEDSEVILYPQA--IFKDPFRGGNNILVICDTYTPA-GEPIPTNKRHRA 170
+DGSS G E+S+++L P DP+R + VICD Y P GEP + R A
Sbjct: 47 FDGSSIRGFQGIEESDMLLKPDPSTAVIDPWRAEKTLRVICDVYEPFTGEPYERDPRSIA 106
Query: 171 AEIFSNSKVS-AEVPWFGIEQEYTLLQQNVKWPLGWPV------------------GAYP 211
K + +FG E E+ L L G P
Sbjct: 107 KRAEEYLKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEGRWNEESGNRGYKP 166
Query: 212 GPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEVMPGQWEYQVGPSVGIDAG 271
+G Y+ A D DI G ++ + EV GQ E +
Sbjct: 167 RDKGGYFPVAPTDT--AVDIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTA 224
Query: 272 DHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYSTKSMRE--------EGGY 323
D I +Y+++ + + G + PKP+ GD NG+G H + S E G
Sbjct: 225 DDIQTYKYVVKNVARKHGKTATFMPKPLFGD-NGSGMHCHQSLWKDGENLFAGEEYAGLS 283
Query: 324 ETIKKAILNLSLRHKEHISAYGE---GNERRLTGKHETASIDSFSWGVANRGCSIRVGRE 380
ET I + L+H + ++A+ + +RL +E ++ NR IR+
Sbjct: 284 ETALYYIGGI-LKHAKALAAFTNPTVNSYKRLVPGYEAPVY--LAYSARNRSALIRIPAS 340
Query: 381 TEKQGKGYLEDRRPASNMDPY 401
+ K +E R P + +PY
Sbjct: 341 GNPKAK-RIEFRFPDPSANPY 360
>gnl|CDD|226477 COG3968, COG3968, Uncharacterized protein related to glutamine
synthetase [General function prediction only].
Length = 724
Score = 44.5 bits (105), Expect = 1e-04
Identities = 43/157 (27%), Positives = 64/157 (40%), Gaps = 17/157 (10%)
Query: 169 RAAEIFSNSKVSAEVPWFGIEQEYTLLQQNVKWP------LGWPVGAYPGPQGP----YY 218
R + N+ G EQEY L+ + G + P P+G +Y
Sbjct: 201 RVLRLLGNTTSQKVFSNVGAEQEYFLVDKKSYDERPDLIFTGRTLFGAPPPKGQELDDHY 260
Query: 219 CGAGADK--SFGRDIADAHYKACLYAGINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWC 276
GA ++ +F +D+ Y GI + EV PGQ+E G A DH
Sbjct: 261 FGAIPERVSAFMKDVEKELYA----LGIPAKTRHNEVAPGQFEIAPIFESGNLATDHQQL 316
Query: 277 SRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS 313
+L++ + G+V L KP G NG+G H N+S
Sbjct: 317 VMEVLKKTALKHGLVCLLHEKPFAG-INGSGKHNNWS 352
>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 = 35.8 bits (83), Expect = 0.045
Identities = 69/347 (19%), Positives = 116/347 (33%), Gaps = 48/347 (13%)
Query: 91 IDMRSKSKTISKPVEHPSELPK-----WNYDGSSTGQAPGEDSEVILYPQA--IFKDPFR 143
+D+ K P E + + GQ+P D +++ P + + P++
Sbjct: 18 VDLHGVQKAKLVPAEAIDHMATGGAGFAGFAAWGLGQSP-ADPDLMAIPDLDSLTQLPWQ 76
Query: 144 GGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVSAE----VPWFGIEQEYTLLQQNV 199
G V D + G+P P R + A G+E E+ LL+++
Sbjct: 77 PGVA-WVAADLH-VNGKPYPQAPRV----VLKRQLAEAAELGLTLNTGVECEFFLLRRDE 130
Query: 200 KWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEVMPGQWE 259
L P Y G + + D+ A G + + E GQ+E
Sbjct: 131 DGSLS-IADRADTLAKPCYDQRGLMRRY--DVLTEISDAMNALGWDPYQNDHEDANGQFE 187
Query: 260 YQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS------ 313
+ + D RY+++ I E+ G+ + PKP D G GCH + S
Sbjct: 188 MNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPKPFA-DLTGNGCHFHLSLWDEDG 246
Query: 314 -----TKSMREEGGYETIKKAILNLSLRHKEHISA--------YGEGNERRLTGKHETAS 360
S G + + L H + A Y N R T T +
Sbjct: 247 RNLFADDSDPNGLGLSKLAYHFIGGILHHAPALCAVLAPTVNSYKRLNAPR-TTSGATWA 305
Query: 361 IDSFSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLL 407
+ S+G NR +R+ G E R +PY+ + +
Sbjct: 306 PNFISYGGNNRTHMVRI------PDPGRFELRLADGAANPYLAQAAI 346
>gnl|CDD|234289 TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype
II/NMENI. The CRISPR-associated protein Cas1 is
virtually universal to CRISPR systems. CRISPR, an
acronym for Clustered Regularly Interspaced Short
Palindromic Repeats, is a prokaryotic immunity system
for foreign DNA, mostly from phage. CRISPR systems
belong to different subtypes, distinguished by both
nature of the repeats, the makeup of the cohort of
associated Cas proteins, and by molecular phylogeny
within the more universal Cas proteins such as this one.
This model is of type EXCEPTION and provides more
specific information than the EQUIVALOG model TIGR00287.
It describes the Cas1 variant of the NMENI subtype of
CRISPR/Cas system.
Length = 278
Score = 28.8 bits (65), Expect = 4.9
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 146 NNILVI-CD-TYTPAGEPIPTNKRHRAAEIF 174
NNI +I CD + P G+ +P HR+ +
Sbjct: 58 NNIALIFCDEKHLPVGQLLPFYGHHRSLKRL 88
>gnl|CDD|226031 COG3500, COG3500, Phage protein D [General function prediction
only].
Length = 350
Score = 28.9 bits (65), Expect = 5.0
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 355 KHETASIDSFSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAETTILW 414
+ A +++ W VA RE GK L +R PA+ LL +
Sbjct: 207 RVTYADREAYGWVVAYYQLVRAAAREEVVSGKDSLGERLPAAAAADSAARLLL-HSRASA 265
Query: 415 EPTLEAEALAA 425
E L+A A AA
Sbjct: 266 EGALQAAAAAA 276
>gnl|CDD|187851 cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Cas1 is the most universal CRISPR system protein thought
to be involved in spacer intergration. Cas1 is
metal-dependent deoxyribonuclease, also binds RNA; Shown
to possess a unique fold consisting of a N-terminal
beta-strand domain and a C-terminal alpha-helical
domain.
Length = 275
Score = 28.4 bits (64), Expect = 6.4
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 146 NNILVI-CD-TYTPAGEPIPTNKRHRAAEIF 174
NNI +I CD + P G+ +P HR+ +
Sbjct: 58 NNIALIFCDEKHLPVGQLLPFYGHHRSLKRL 88
>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 = 28.2 bits (63), Expect = 6.5
Identities = 12/44 (27%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 122 QAPGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTN 165
G + V ++P+ IFK+ + + L++ + P+GEP P+
Sbjct: 136 VFIGTVNHVPVHPREIFKEALKLSASALILAHNH-PSGEPSPSQ 178
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
0.314 0.133 0.407
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,862,477
Number of extensions: 2086422
Number of successful extensions: 1018
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1002
Number of HSP's successfully gapped: 14
Length of query: 432
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 332
Effective length of database: 6,502,202
Effective search space: 2158731064
Effective search space used: 2158731064
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: 42 (22.0 bits)
S2: 60 (26.7 bits)