RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10339
(476 letters)
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 33.1 bits (76), Expect = 0.025
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 376 EEMERMREHVFKEADVNRDRLISWEEFLEM 405
EE+E + E F E D + D IS+EEFLE
Sbjct: 30 EEVEELIEADFNEIDKDGDGRISFEEFLEA 59
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 36.5 bits (84), Expect = 0.031
Identities = 31/158 (19%), Positives = 59/158 (37%), Gaps = 7/158 (4%)
Query: 178 DLHKLIVQVTNDLAEADRKRRELFKEYELQKRYERDQKLSLMTD--QEKEEFLKKEAEEI 235
+ + + + ++ D KR + KE EL K+ K D Q+ + + E +
Sbjct: 195 NFRRDMTDLKERESQEDAKRAQQLKE-ELDKKQIDADKAQQKADFAQDNADKQRDEVRQK 253
Query: 236 RKRKSNI-DKADVHHPGSKKQLEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVK 294
++ N+ AD P KQ+ E + + E A+ D ++E K
Sbjct: 254 QQEAKNLPKPADTSSPKEDKQVAENQKREIEKAQIEIKKNDEEALKAKDHKAFDLKQESK 313
Query: 295 MLFLKELDKMYKEGMPQNDLMERAEEMERMREHVFKEA 332
E + KE Q AE++++ + V +
Sbjct: 314 A---SEKEAEDKELEAQKKREPVAEDLQKTKPQVEAQP 348
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily
archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and C-terminal
domains of this protein are well conserved, but the
central hinge region is skewed in composition and highly
divergent [Cellular processes, Cell division, DNA
metabolism, Chromosome-associated proteins].
Length = 1164
Score = 35.4 bits (82), Expect = 0.068
Identities = 66/314 (21%), Positives = 125/314 (39%), Gaps = 32/314 (10%)
Query: 92 EALESDPEFRKKLENASEADIRSGKIAQELEYVNHQVRSKLDELKRTELDRLRE-LAKRQ 150
E LE + E K+ E D+ S + QE+E V+S+L EL ++ L E L K +
Sbjct: 726 EQLEQEEEKLKERLEELEEDLSS--LEQEIE----NVKSELKEL-EARIEELEEDLHKLE 778
Query: 151 YELSEGKAVPDAPGHVDHNNPHSFEINDLHKLIVQVTNDLAEADRKRRELFKEYELQKRY 210
L++ +A + + ++ + I ++ E R L KEY ++
Sbjct: 779 EALNDLEARL-SHSRIPEIQAELSKLEEEVSRIEARLREI-EQKLNRLTLEKEYLEKEIQ 836
Query: 211 ERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKADVHHPGSKKQLE--------EVWQE 262
E ++ + +Q K +KE E + +K +++ + + LE E +
Sbjct: 837 ELQEQRIDLKEQIKSI--EKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDEL 894
Query: 263 QDHMGNTEFNPKAFFAMHDLDGNHVWDEE---EVKMLFLKELDKMYKEGM--PQNDLMER 317
+ + E + A + + + + E L E++ E P+ +L
Sbjct: 895 EAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSEIEDPKGEDEEIPEEELSLE 954
Query: 318 --AEEMERMREHVFKEADVNRDHLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLMERA 375
E++R+ E + VN + + EEV + +K K + ++ER
Sbjct: 955 DVQAELQRVEEEIRALEPVNMLAIQ-----EYEEVLKRLDELKEKRAKLEEERKAILERI 1009
Query: 376 EEMERMREHVFKEA 389
EE E+ + VF EA
Sbjct: 1010 EEYEKKKREVFMEA 1023
Score = 29.3 bits (66), Expect = 5.6
Identities = 44/248 (17%), Positives = 101/248 (40%), Gaps = 23/248 (9%)
Query: 89 EVVEALESDPEFRKKLENA-SEADIRSGKIAQELEYVNHQVRSKLDELKRTELDRLRELA 147
E+ L E ++E E + + ++ E EY+ +++ ++ + ++++ +
Sbjct: 795 EIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLK-EQIKSIE 853
Query: 148 KRQYELSEGKAVPDAPGHVDHNNPHSFEINDLHKLIVQVTNDLAEADRKRRELFKEYELQ 207
K L+ K + E+ +L + + + L + ++R EL +
Sbjct: 854 KEIENLNGKKEELEE------------ELEELEAALRDLESRLGDLKKERDELEAQLREL 901
Query: 208 KRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNID---KADVHHPGSKKQLEEVWQEQD 264
+R + + + +++ LK + E + + S I+ D P + LE+V E
Sbjct: 902 ERKIEELEAQIEKKRKRLSELKAKLEALEEELSEIEDPKGEDEEIPEEELSLEDVQAELQ 961
Query: 265 HMGNTEFNPKAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLMERAEEMERM 324
+ + A+ ++ + + EEV + +K K + ++ER EE E+
Sbjct: 962 RVE------EEIRALEPVNMLAIQEYEEVLKRLDELKEKRAKLEEERKAILERIEEYEKK 1015
Query: 325 REHVFKEA 332
+ VF EA
Sbjct: 1016 KREVFMEA 1023
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 35.1 bits (82), Expect = 0.071
Identities = 17/75 (22%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 192 EADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKADVHHPG 251
E + R E KE ++ + + L +KEE L ++ E + KR+ ++K +
Sbjct: 65 EIHKLRNEFEKELRERRNELQKLEKRL---LQKEENLDRKLELLEKREEELEKKEKELEQ 121
Query: 252 SKKQLEEVWQEQDHM 266
+++LE+ +E + +
Sbjct: 122 KQQELEKKEEELEEL 136
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 35.1 bits (81), Expect = 0.11
Identities = 52/260 (20%), Positives = 105/260 (40%), Gaps = 18/260 (6%)
Query: 76 AEELGIEYNRYLNEVVEALESDPEFRKKLENA-SEADIRSGKIAQELEYVNHQVRSKLDE 134
EE + + E+ E ++ E ++LE EA+ R + +ELE + + E
Sbjct: 770 LEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQE 829
Query: 135 LKRTELDRLRELAKRQYELSEGKAVPDAP--GHVDHNNPHSFEINDLHKLIVQVTNDLAE 192
++ E + + EL ++ EL E + + E +L + ++ + E
Sbjct: 830 IEELE-EEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEE 888
Query: 193 ADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKADVHHPGS 252
+ + REL E K + L + K E L+ E E+ + + D
Sbjct: 889 LEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYE-DTLETEL 947
Query: 253 KKQLEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYKEGMPQN 312
++++E + +E + +G N +A ++E E + LK + +E +
Sbjct: 948 EREIERLEEEIEALGP--VNLRAI---------EEYEEVEERYEELKSQREDLEEA--KE 994
Query: 313 DLMERAEEMERMREHVFKEA 332
L+E EE+++ + FKE
Sbjct: 995 KLLEVIEELDKEKRERFKET 1014
Score = 33.5 bits (77), Expect = 0.27
Identities = 56/315 (17%), Positives = 119/315 (37%), Gaps = 35/315 (11%)
Query: 77 EELGIEYNRYLNEVVEALESDPEFRKKLENASE--ADIRSGKIAQELEYVNHQVRSKLDE 134
E+L E+ E E E +++LE E + + E + + + +
Sbjct: 733 EQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQ 792
Query: 135 LKRTELDRLRELAKRQYELSEGKAVPDAPGHVDHNNPHSFEINDLHKLIVQVTNDLAEAD 194
+ EL+ E A+R+ + E + L + I ++ ++ E +
Sbjct: 793 EELEELEEELEEAERRLDALEREL-----------ESLEQRRERLEQEIEELEEEIEELE 841
Query: 195 RKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKADVHHPGSKK 254
K EL +E E ++ + K L + ++E L+ E +E+ + K +++
Sbjct: 842 EKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELA 901
Query: 255 QLEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDL 314
+L+E ++ + +L+ E E+ L + + E + +L
Sbjct: 902 ELKEEIEKLRER------------LEELEAKLERLEVELPELEEELEE--EYEDTLETEL 947
Query: 315 MERAEEMERMREHVFKEADVNRDHLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLMER 374
E +E E VN ++ ++E E + LK + +E + L+E
Sbjct: 948 EREIERLEEEIE---ALGPVNLRAIE---EYEEVEERYEELKSQREDLEEA--KEKLLEV 999
Query: 375 AEEMERMREHVFKEA 389
EE+++ + FKE
Sbjct: 1000 IEELDKEKRERFKET 1014
Score = 32.8 bits (75), Expect = 0.55
Identities = 37/180 (20%), Positives = 71/180 (39%), Gaps = 22/180 (12%)
Query: 85 RYLNEVVEALESDPEFRKKLENASEADIRSGKIAQELEYVNHQVRSKLDELKRTELDRLR 144
NE+ E E E ++K+E E + +ELE + ++ +EL+ L
Sbjct: 313 ELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLE 372
Query: 145 ELAKRQYELSEGKAVPDAPGHVDHNNPHSFEINDLHKLIVQVTNDLAEADRKRRELFKEY 204
EL + L E E+ +L + ++ N+L E R+ L +
Sbjct: 373 ELEELFEALRE-------------------ELAELEAELAEIRNELEELKREIESLEERL 413
Query: 205 ELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKADVHHPGSKKQLEEVWQEQD 264
E D K L + + E L+ E EE+ + +++ + + +L+E+ +E
Sbjct: 414 ERLSERLEDLKEELKELEAELEELQTELEELNEE---LEELEEQLEELRDRLKELERELA 470
Score = 32.0 bits (73), Expect = 0.87
Identities = 34/170 (20%), Positives = 70/170 (41%), Gaps = 8/170 (4%)
Query: 91 VEALESD-PEFRKKLENASEADIRSGKIAQELEYVNHQVRSKLDELKRTELDRLRELAKR 149
+E L+S+ E R++LE E + + +ELE +R +L+EL+ + L +
Sbjct: 269 IEELKSELEELREELEELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEEL 328
Query: 150 QYELSEGKAVPDAPGHVDHNNPHSFEINDLHKLIVQVTNDLAEADRKRRELFKEYELQKR 209
+ ++ K ++ E+ L + + +L E E +E R
Sbjct: 329 KEKIEALKE------ELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALR 382
Query: 210 YERDQKLSLMTD-QEKEEFLKKEAEEIRKRKSNIDKADVHHPGSKKQLEE 258
E + + + + + + E LK+E E + +R + + K+LE
Sbjct: 383 EELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEA 432
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 30.2 bits (69), Expect = 0.23
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 383 EHVFKEADVNRDRLISWEEFLEMTRRQ 409
+ +F+E D + D IS+EEF + +R
Sbjct: 27 DILFREFDTDGDGKISFEEFCVLLQRL 53
>gnl|CDD|240156 cd05030, calgranulins, Calgranulins: S-100 domain found in proteins
belonging to the Calgranulin subgroup of the S100 family
of EF-hand calcium-modulated proteins, including S100A8,
S100A9, and S100A12 . Note that the S-100 hierarchy, to
which this Calgranulin group belongs, contains only
S-100 EF-hand domains, other EF-hands have been modeled
separately. These proteins are expressed mainly in
granulocytes, and are involved in inflammation, allergy,
and neuritogenesis, as well as in host-parasite
response. Calgranulins are modulated not only by
calcium, but also by other metals such as zinc and
copper. Structural data suggested that calgranulins may
exist in multiple structural forms, homodimers, as well
as hetero-oligomers. For example, the S100A8/S100A9
complex called calprotectin plays important roles in the
regulation of inflammatory processes, wound repair, and
regulating zinc-dependent enzymes as well as microbial
growth.
Length = 88
Score = 31.2 bits (71), Expect = 0.24
Identities = 14/56 (25%), Positives = 33/56 (58%), Gaps = 3/56 (5%)
Query: 353 LFLKELDKMYKEGMPQNDLMERAEEMERMREHVFKEADVNRDRLISWEEFLEMTRR 408
L+ KE ++ ++ +P + E+ ++ + +F++ D N+D +S+EEFL + +
Sbjct: 27 LYKKEFKQLVEKELPN---FLKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVIK 79
>gnl|CDD|200946 pfam00036, efhand, EF hand. The EF-hands can be divided into two
classes: signaling proteins and buffering/transport
proteins. The first group is the largest and includes
the most well-known members of the family such as
calmodulin, troponin C and S100B. These proteins
typically undergo a calcium-dependent conformational
change which opens a target binding site. The latter
group is represented by calbindin D9k and do not undergo
calcium dependent conformational changes.
Length = 29
Score = 29.3 bits (67), Expect = 0.26
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 383 EHVFKEADVNRDRLISWEEFLEMTRRQ 409
+ FKE D + D IS+EEF E+ ++
Sbjct: 3 KEAFKEFDKDGDGKISFEEFKELLKKL 29
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 33.5 bits (77), Expect = 0.27
Identities = 66/315 (20%), Positives = 117/315 (37%), Gaps = 79/315 (25%)
Query: 122 EYVNHQVRSKLDELKR-TELDR----LRELAKRQY-ELSEGKAVPDAPGHVDHNNPHSFE 175
E V+ R ++E++R E++R L K+ L + PD P S E
Sbjct: 17 EDVSAFQRKFVNEVRRCDEVERKLRKLESKIKKLGIPLKDTGGKPDVPP--------SKE 68
Query: 176 INDLHKLIVQVTNDLAEADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEI 235
DL + I+ + ++ E + L KE + E L E++ FL + EE+
Sbjct: 69 FLDLEEEILDLEAEIKEVEENLESLEKEINELE--EWLNVL-----DEEKSFLDENLEEL 121
Query: 236 RKRKSNIDKADVHHPGSKKQLEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVKM 295
+ SN+D ++ E F A V + E+++
Sbjct: 122 SEL-SNLDIDF-----------------KYLRGAEGLKLGFVA-------GVINREKLEA 156
Query: 296 LFLKELDKMYKEGMPQNDLMERAEEMERMREHVFKEADVNRDHLDGNHVWDEEEVKMLFL 355
F +EL + + + Q ++ E E+ ++ +F D ++VK
Sbjct: 157 -FERELWRACRGYIRQAEIEEPLEDPKKTVFIIFF-------VGKE----DLDKVK---- 200
Query: 356 KELDKM----YK----EGMPQ---NDLMERAEEMERMRE----HVFKEADVNRDRLISWE 400
K LD Y EG + + +R EE++R+ E H+ K D L++W+
Sbjct: 201 KILDSFGFELYDVPETEGERSELISKVNKRIEELQRVLEQTESHLEKVLVKIADELLAWD 260
Query: 401 E--FLEMTRRQEFNQ 413
E E + N
Sbjct: 261 EQVSKEKAVYETLNL 275
>gnl|CDD|213396 cd12153, F1-ATPase_epsilon, eukaryotic mitochondrial ATP synthase
epsilon subunit. The F-ATPase is found in bacterial
plasma membranes, mitochondrial inner membranes, and in
chloroplast thylakoid membranes. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinsic membrane
domain, F1, is composed of alpha, beta, gamma, delta,
and epsilon subunits (only found in eukaryotes, lacking
in bacteria) with a stoichiometry of 3:3:1:1:1. Alpha
and beta subunit form the globular catalytic moiety, a
hexameric ring of alternating subunits. Gamma, delta and
epsilon subunits form a stalk, connecting F1 to F0, the
integral membrane proton translocating domain.The
epsilon subunit is thought to be involved in the
regulation of ATP synthase, since a null mutation
increased oligomycin sensitivity and decreased
inhibition by inhibitor protein IF1.
Length = 45
Score = 28.4 bits (64), Expect = 0.76
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 2/36 (5%)
Query: 80 GIEYNRYLNEVVEALES--DPEFRKKLENASEADIR 113
G+ Y RY N AL FR K E +++
Sbjct: 6 GLSYLRYSNICARALRRALKEPFRAKALKREETELK 41
>gnl|CDD|204523 pfam10591, SPARC_Ca_bdg, Secreted protein acidic and rich in
cysteine Ca binding region. The SPARC_Ca_bdg domain of
Secreted Protein Acidic and Rich in Cysteine is
responsible for the anti-spreading activity of human
urothelial cells. It is rich in alpha-helices. This
extracellular calcium-binding domain contains two
EF-hands that each coordinates one Ca2+ ion, forming a
helix-loop-helix structure that not only drives the
conformation of the protein but is also necessary for
biological activity. The anti-spreading activity was
dependent on the coordination of Ca2+ by a Glu residue
at the Z position of EF-hand 2.
Length = 112
Score = 29.6 bits (67), Expect = 1.2
Identities = 24/104 (23%), Positives = 35/104 (33%), Gaps = 33/104 (31%)
Query: 313 DLMERAEEMERMREHVFKEADVNR------------DHLDGNH--VWDEEEVKMLFLKEL 358
DL ER E ++ E + K + + LD NH E L
Sbjct: 25 DLYERRELVDHYSELL-KRDEQKNYPMCKDPLGWMFNQLDTNHDGYLSRSE--------L 75
Query: 359 DKMYKEGMPQNDLMERAEEMERMREHVFKEADVNRDRLISWEEF 402
+ +P ME + FK D ++D LIS E+
Sbjct: 76 APLRAPLVP----------MEHCIKPFFKSCDADKDGLISLREW 109
>gnl|CDD|150747 pfam10107, Endonuc_Holl, Endonuclease related to archaeal Holliday
junction resolvase. This domain is found in various
predicted bacterial endonucleases which are distantly
related to archaeal Holliday junction resolvases.
Length = 153
Score = 29.6 bits (67), Expect = 1.7
Identities = 15/47 (31%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 192 EADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKR 238
+ +++ RELF+++ + ER+ + + + EE+ KKE +EIRK
Sbjct: 19 KVEKRARELFEQW---RNAEREAQAMREAEAKFEEWQKKEEKEIRKD 62
>gnl|CDD|213672 TIGR01990, bPGM, beta-phosphoglucomutase. This model represents
the beta-phosphoglucomutase enzyme which catalyzes the
interconverison of beta-D-glucose-1-phosphate and
beta-D-glucose-6-phosphate. The 6-phosphate is capable
of non-enzymatic anomerization (alpha <-> beta) while
the 1-phosphate is not. A separate enzyme is responsible
for the isomerization of the alpha anomers.
Beta-D-glucose-1-phosphate results from the
phosphorylysis of maltose (2.4.1.8), trehalose
(2.4.1.64) or trehalose-6-phosphate (2.4.1.216).
Alternatively, these reactions can be run in the
synthetic direction to create the disaccharides. All
sequenced genomes which contain a member of this family
also appear to contain at least one putative maltose or
trehalose phosphorylase. Three species, Lactococcus,
Enterococcus and Neisseria appear to contain a pair of
paralogous beta-PGM's. Beta-phosphoglucomutase is a
member of the haloacid dehalogenase superfamily of
hydrolase enzymes. These enzymes are characterized by a
series of three catalytic motifs positioned within an
alpha-beta (Rossman) fold. beta-PGM contains an inserted
alpha helical domain in between the first and second
conserved motifs and thus is a member of subfamily IA of
the superfamily. The third catalytic motif comes in
three variants, the third of which, containing a
conserved DD or ED, is the only one found here as well
as in several other related enzymes (TIGR01509). The
enzyme from L. lactis has been extensively characterized
including a remarkable crystal structure which traps the
pentacoordinate transition state [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 185
Score = 30.0 bits (68), Expect = 1.8
Identities = 21/103 (20%), Positives = 43/103 (41%), Gaps = 6/103 (5%)
Query: 66 EHHEGGNGNMAEELGIEYNRYLNEVVEALESDPEFRKKLENASEADIRSGKIAQELEYVN 125
E+H ++A+ELGI ++ NE ++ + + + L+ + + + E N
Sbjct: 15 EYHYLAWKHLADELGIPFDEEFNESLKGVSREESLERILDLGGK-KYSEEEKEELAERKN 73
Query: 126 HQVRSKLDELKRTEL-----DRLRELAKRQYELSEGKAVPDAP 163
L EL ++ L +L K +++ A +AP
Sbjct: 74 DYYVELLKELTPADVLPGIKSLLADLKKNNIKIALASASKNAP 116
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 30.9 bits (69), Expect = 1.8
Identities = 33/147 (22%), Positives = 57/147 (38%), Gaps = 1/147 (0%)
Query: 99 EFRKKLENASEADIRSGKIAQELEYVNHQVRSKLDELKRTELDRLRELAKRQYELSEGKA 158
E +K E + + + A++ E + K +E K+ E R+ E+ K E + KA
Sbjct: 1550 ELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKA 1609
Query: 159 VPDAPGHVDHNNPHSF-EINDLHKLIVQVTNDLAEADRKRRELFKEYELQKRYERDQKLS 217
+ + K + Q+ AE +K EL K E K ++
Sbjct: 1610 EEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKK 1669
Query: 218 LMTDQEKEEFLKKEAEEIRKRKSNIDK 244
D++K E KK E+ +K + K
Sbjct: 1670 AEEDKKKAEEAKKAEEDEKKAAEALKK 1696
>gnl|CDD|233253 TIGR01057, topA_arch, DNA topoisomerase I, archaeal. This model
describes topoisomerase I from archaea. These enzymes
are involved in the control of DNA topology. DNA
topoisomerase I belongs to the type I topoisomerases,
which are ATP-independent [DNA metabolism, DNA
replication, recombination, and repair].
Length = 618
Score = 30.6 bits (69), Expect = 2.1
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 96 SDPEFRKKLENASEADIRSGKIAQE--LEYVNHQVRSKLDELKRTELDRLRELAK 148
E ++ E+ E DI SG+I ++ ++ ++R L+E K+ D EL K
Sbjct: 528 ISEELTRRFESKLE-DIMSGRITKDEVIDEAKKRLRKILEEFKKRLDDIGIELGK 581
>gnl|CDD|215598 PLN03138, PLN03138, Protein TOC75; Provisional.
Length = 796
Score = 30.2 bits (68), Expect = 2.7
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 208 KRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKA 245
K E D+ MTD+EK E+ + + ++ ++R I KA
Sbjct: 244 KPIEMDED---MTDKEKMEYYRSQEKDYKRR---IRKA 275
>gnl|CDD|217206 pfam02731, SKIP_SNW, SKIP/SNW domain. This domain is found in
chromatin proteins.
Length = 158
Score = 29.2 bits (66), Expect = 2.9
Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 185 QVTNDLAEADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRK 239
+++ L A+RK RE E+++R E ++L+ QEKEE L++ A+ R+ +
Sbjct: 109 KLSEALYIAERKARE-----EVRQRAELQRQLAEKEKQEKEEKLRELAQRAREER 158
>gnl|CDD|236587 PRK09606, PRK09606, DNA-directed RNA polymerase subunit B'';
Validated.
Length = 494
Score = 29.9 bits (68), Expect = 3.3
Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 11/70 (15%)
Query: 79 LGIEYNRYLNEVVEALESDPEFRKK-LENASEADIRSGKIAQELEYVNHQVRSKLDE--- 134
LG+E + E+VEA+ DPE K LEN EA++ + + A LEY+ +V +
Sbjct: 226 LGLETDE---EIVEAVSDDPEIVKFMLENLEEAEVDTQEEA--LEYIGKRVAPGQTKEYR 280
Query: 135 LKRTE--LDR 142
+KR E +DR
Sbjct: 281 IKRAEYVIDR 290
>gnl|CDD|219612 pfam07862, Nif11, Nitrogen fixation protein of unknown function.
This domain is found in the Cyanobacteria, and may be
involved in nitrogen fixation, but no role has been
assigned.
Length = 49
Score = 26.7 bits (60), Expect = 3.3
Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 87 LNEVVEALESDPEFRKKLENASEADIRSGKIAQEL 121
L +E ++SDP R++L+ S+A+ +A+E
Sbjct: 6 LKAFLEKVKSDPSLREQLKACSDAEEVV-ALAKEA 39
>gnl|CDD|111000 pfam02057, Glyco_hydro_59, Glycosyl hydrolase family 59.
Length = 669
Score = 29.6 bits (66), Expect = 3.9
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 10/77 (12%)
Query: 280 HDLDGNH--VWDEEEVKMLFLKELDKMYK-EGMPQ------NDLMERAEEMERMREHVFK 330
HDLD ++ +W+E ++KEL KM +G+ + ++L E + + ++K
Sbjct: 170 HDLDIDYIGIWNERSFDANYIKELRKMLNYQGLQRVKIIASDNLWEPISASMLLDQELWK 229
Query: 331 EADVNRDHLDGNH-VWD 346
DV H G H V D
Sbjct: 230 VVDVIGAHYPGTHTVKD 246
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 26.1 bits (59), Expect = 4.0
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 383 EHVFKEADVNRDRLISWEEFLEM 405
+ +F++ D N D IS EE +
Sbjct: 2 KDLFRQFDTNGDGKISKEELKRL 24
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 29.6 bits (67), Expect = 4.8
Identities = 40/203 (19%), Positives = 89/203 (43%), Gaps = 31/203 (15%)
Query: 74 NMAEELGIEYNRYLNEVVEALESDPEFRKKLENASEADIRSGKIAQELEYVNHQVRSKLD 133
+ +E E L E+ E PE R++LE + ++ +E+E + ++ S
Sbjct: 193 ELIKEKEKELEEVLREINEISSELPELREELEKLEKEVKELEELKEEIEELEKELESLEG 252
Query: 134 ELKRTELDRLRELAKRQYELSEGKAVPDAPGHVDHNNPHSFEINDLHKLIVQVTN--DLA 191
++ E +++REL +R EL + EI +L + + ++ + A
Sbjct: 253 SKRKLE-EKIRELEERIEELKK-------------------EIEELEEKVKELKELKEKA 292
Query: 192 EADRKRRELFKEYELQKRYERDQKLSLMTDQ--------EKEEFLKKEAEEIRKRKSNID 243
E K E ++EY L + E +++LS + ++ ++ E ++ EE++K+ ++
Sbjct: 293 EEYIKLSEFYEEY-LDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELE 351
Query: 244 KADVHHPGSKKQLEEVWQEQDHM 266
K + EE +++ +
Sbjct: 352 KRLEELEERHELYEEAKAKKEEL 374
>gnl|CDD|239618 cd03556, L-fucose_isomerase, L-fucose isomerase (FucIase); FucIase
converts L-fucose, an aldohexose, to its ketose form,
which prepares it for aldol cleavage (similar to the
isomerization of glucose during glycolysis). L-fucose
(or 6-deoxy-L-galactose) is found in blood group
determinants as well as in various oligo- and
polysaccharides, and glycosides in mammals, bacteria and
plants.
Length = 584
Score = 29.4 bits (66), Expect = 5.1
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 287 VWDEEEVKMLFLKELDKMYKEGMPQN--DLMERAEEMERMREHVFKEADVNRDHLDGN 342
++D EE + L + KEG +N + ++ E+ ++ E V K A + RD + GN
Sbjct: 215 IYDPEEYEKA-LAWTKENCKEGEDENEKNDQKKREQKDKDWEFVVKMAIIIRDLMYGN 271
Score = 28.6 bits (64), Expect = 8.4
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 344 VWDEEEVKMLFLKELDKMYKEGMPQN--DLMERAEEMERMREHVFKEADVNRDRLISWEE 401
++D EE + L + KEG +N + ++ E+ ++ E V K A + RD + E+
Sbjct: 215 IYDPEEYEKA-LAWTKENCKEGEDENEKNDQKKREQKDKDWEFVVKMAIIIRDLMYGNEK 273
Query: 402 FLEMTRRQE 410
++ +E
Sbjct: 274 LADLGFEEE 282
>gnl|CDD|218490 pfam05193, Peptidase_M16_C, Peptidase M16 inactive domain.
Peptidase M16 consists of two structurally related
domains. One is the active peptidase, whereas the other
is inactive. The two domains hold the substrate like a
clamp.
Length = 182
Score = 28.6 bits (64), Expect = 5.9
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 267 GNTEFNPKAFFAMH-DLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLMERA 318
++ F ++ DLD ++ +EV L +EL K+ +EG+ + +L ERA
Sbjct: 130 FFDSYSDTGLFGIYADLDPENL---DEVIELIFEELKKLAEEGITEEEL-ERA 178
>gnl|CDD|217933 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 28.6 bits (64), Expect = 6.0
Identities = 19/138 (13%), Positives = 46/138 (33%), Gaps = 23/138 (16%)
Query: 101 RKKLENASEADIRSGKIAQELEYVNHQVRSKLDELKRTELDRLRELAKRQYELSEGKAVP 160
+KLE + EL + L+E L +L + L E
Sbjct: 71 PQKLEELQGELSELKQQLSEL----QEELEDLEERIAELESELEDLKEDLQLLRE----- 121
Query: 161 DAPGHVDHNNPHSFEINDLHKLIVQVTNDLAEADRKRRELFKEYELQKRYERDQKLSLMT 220
+ L + + + + E ++ REL ++ + R++ L
Sbjct: 122 --------------LLKSLEERLESLEESIKELAKELRELRQDLREEVEELREELERLQE 167
Query: 221 DQEKEEFLKKEAEEIRKR 238
+ ++ + +E + + ++
Sbjct: 168 NLQRLQEAIQELQSLLEQ 185
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 29.1 bits (66), Expect = 6.4
Identities = 20/78 (25%), Positives = 40/78 (51%), Gaps = 13/78 (16%)
Query: 192 EADRKRRELFKEY-----ELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNIDKAD 246
E + R EL +E ELQ+ +++L ++EE L ++ E + K++ N++K +
Sbjct: 59 EVHKLRAELERELKERRNELQRL---ERRL-----LQREETLDRKMESLDKKEENLEKKE 110
Query: 247 VHHPGSKKQLEEVWQEQD 264
+K L+E +E +
Sbjct: 111 KELSNKEKNLDEKEEELE 128
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 29.2 bits (66), Expect = 6.5
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 74 NMAEELGIEYNRYLNEVVEALE----SDPEFRKKLENAS 108
+A+E GIE V++ E SD E + +E S
Sbjct: 579 AIAKECGIEAEAESALVIDGAELDALSDEELAELVEELS 617
>gnl|CDD|240416 PTZ00432, PTZ00432, falcilysin; Provisional.
Length = 1119
Score = 29.0 bits (65), Expect = 6.6
Identities = 18/87 (20%), Positives = 38/87 (43%), Gaps = 7/87 (8%)
Query: 225 EEFLKKEAEEIRKRKSNIDKADVHHPGSKKQLEEVWQEQDHMGNTEFNPKAFFAMHDLDG 284
+EF K +E+++R S++ K V ++E+ +++ + +P+ + L
Sbjct: 581 KEFNKLVKDELKERLSHLTKEQV------DEMEKAYEKFKKEREADDDPEHLDSFPILSL 634
Query: 285 NHVWDE-EEVKMLFLKELDKMYKEGMP 310
+ + E EE+ K KE M
Sbjct: 635 SDLNKETEEIPTKLYKLSSDSLKENMD 661
>gnl|CDD|238008 cd00051, EFh, EF-hand, calcium binding motif; A diverse superfamily
of calcium sensors and calcium signal modulators; most
examples in this alignment model have 2 active canonical
EF hands. Ca2+ binding induces a conformational change
in the EF-hand motif, leading to the activation or
inactivation of target proteins. EF-hands tend to occur
in pairs or higher copy numbers.
Length = 63
Score = 26.4 bits (59), Expect = 7.0
Identities = 22/80 (27%), Positives = 33/80 (41%), Gaps = 21/80 (26%)
Query: 326 EHVFKEADVNRDHLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLMERAEEMERMREHV 385
F+ D DG+ +E+K LK L + E EE++ M
Sbjct: 3 REAFRLFDK-----DGDGTISADELKA-ALKSLGEGLSE-----------EEIDEM---- 41
Query: 386 FKEADVNRDRLISWEEFLEM 405
+E D + D I +EEFLE+
Sbjct: 42 IREVDKDGDGKIDFEEFLEL 61
Score = 26.0 bits (58), Expect = 9.8
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 16/64 (25%)
Query: 274 KAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLMERAEEMERMREHVFKEAD 333
+ F + D DG+ +E+K LK L + E EE++ M +E D
Sbjct: 3 REAFRLFDKDGDGTISADELKA-ALKSLGEGLSE-----------EEIDEM----IREVD 46
Query: 334 VNRD 337
+ D
Sbjct: 47 KDGD 50
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 28.5 bits (64), Expect = 7.3
Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 186 VTNDLAEADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRK 239
+ +LA+AD K+RE +E R E ++K + DQ++E L K EE + +
Sbjct: 41 IAGELADADTKKREAEQE-----RREYEEKNEEL-DQQREVLLTKAKEEAQAER 88
>gnl|CDD|185747 cd09234, V_HD-PTP_like, Protein-interacting V-domain of mammalian
His-Domain type N23 protein tyrosine phosphatase and
related domains. This family contains the V-shaped (V)
domain of mammalian His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23) and related
domains. It belongs to the V_Alix_like superfamily which
includes the V domains of Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, mammalian Alix
(apoptosis-linked gene-2 interacting protein X/ also
known as apoptosis-linked gene-2 interacting protein 1,
AIP1), and related domains. HD_PTP interacts with the
ESCRT (Endosomal Sorting Complexes Required for
Transport) system, and participates in cell migration
and endosomal trafficking. The related Alix V-domain
(belonging to a different family in this superfamily)
contains a binding site, partially conserved in the
superfamily, for the retroviral late assembly (L) domain
YPXnL motif. The Alix V-domain is also a dimerization
domain. In addition to the V-domain, HD_PTP also has an
N-terminal Bro1-like domain, a proline-rich region
(PRR), a catalytically inactive tyrosine phosphatase
domain, and a region containing a PEST motif. Bro1-like
domains bind components of the ESCRT-III complex,
specifically to CHMP4 in the case of HD-PTP. The
Bro1-like domain of HD-PTP can also bind human
immunodeficiency virus type 1 (HIV-1) nucleocapsid.
HD-PTP is encoded by the PTPN23 gene, a tumor suppressor
gene candidate frequently absent in human kidney,
breast, lung, and cervical tumors. This family also
contains Drosophila Myopic, which promotes epidermal
growth factor receptor (EGFR) signaling, and
Caenorhabditis elegans (enhancer of glp-1) EGO-2 which
promotes Notch signaling.
Length = 337
Score = 28.4 bits (64), Expect = 7.6
Identities = 23/132 (17%), Positives = 49/132 (37%), Gaps = 31/132 (23%)
Query: 82 EYNRYLNEVVEALESDPEFRKKLENASE---------ADIRS--------GKIAQELEYV 124
+ + L++ + +L+ DP ++ E A + + EL V
Sbjct: 28 DKDEELDQFLSSLQLDPLNVMDMDGQFELPQDLVERCAALSVRPDTIKNLVEAMGELSDV 87
Query: 125 NHQVRSKLDELKRTELDRLRELAKRQYELSEGKAVPDAPGHV-----------DHNNPHS 173
V + L+E++ L EL +++++ + GK + HV + + S
Sbjct: 88 YQDVEAMLNEIE--SLLEEEELQEKEFQEAVGK-RGSSIAHVTELKRELKKYKEAHEKAS 144
Query: 174 FEINDLHKLIVQ 185
+LHK +
Sbjct: 145 QSNTELHKAMNL 156
>gnl|CDD|181896 PRK09482, PRK09482, flap endonuclease-like protein; Provisional.
Length = 256
Score = 28.3 bits (64), Expect = 7.6
Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 8/59 (13%)
Query: 287 VWDEEEVKMLFLKELDKMYKEG---MPQNDLMERAEEMERMREHVFKEADVNRDHLDGN 342
V+D + + +L YK G MP+ + + +R F+E ++ H DGN
Sbjct: 53 VFDGDARSSGWRHQLLPDYKAGRKPMPEA----LQQGLPAIRAA-FEELGIDSWHADGN 106
>gnl|CDD|197492 smart00054, EFh, EF-hand, calcium binding motif. EF-hands are
calcium-binding motifs that occur at least in pairs.
Links between disease states and genes encoding
EF-hands, particularly the S100 subclass, are emerging.
Each motif consists of a 12 residue loop flanked on
either side by a 12 residue alpha-helix. EF-hands
undergo a conformational change unpon binding calcium
ions.
Length = 29
Score = 25.0 bits (56), Expect = 7.7
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 385 VFKEADVNRDRLISWEEFLEM 405
F+ D + D I +EEF ++
Sbjct: 5 AFRLFDKDGDGKIDFEEFKDL 25
>gnl|CDD|173839 cd01150, AXO, Peroxisomal acyl-CoA oxidase. Peroxisomal acyl-CoA
oxidases (AXO) catalyze the first set in the peroxisomal
fatty acid beta-oxidation, the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. In a second oxidative
half-reaction, the reduced FAD is reoxidized by
molecular oxygen. AXO is generally a homodimer, but it
has been reported to form a different type of oligomer
in yeast. There are several subtypes of AXO's, based on
substrate specificity. Palmitoyl-CoA oxidase acts on
straight-chain fatty acids and prostanoids; whereas, the
closely related Trihydroxycoprostanoly-CoA oxidase has
the greatest activity for 2-methyl branched side chains
of bile precursors. Pristanoyl-CoA oxidase, acts on
2-methyl branched fatty acids. AXO has an additional
domain, C-terminal to the region with similarity to
acyl-CoA dehydrogenases, which is included in this
alignment.
Length = 610
Score = 28.8 bits (65), Expect = 7.7
Identities = 15/66 (22%), Positives = 32/66 (48%)
Query: 181 KLIVQVTNDLAEADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKS 240
K + + E R++RE+ +E E ++R+ ++ +E E LK++A+ +R
Sbjct: 15 KALTHILEGGEENLRRKREVERELESDPLFQRELPSKHLSREELYEELKRKAKTDVERMG 74
Query: 241 NIDKAD 246
+ D
Sbjct: 75 ELMADD 80
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 28.7 bits (65), Expect = 7.8
Identities = 21/123 (17%), Positives = 46/123 (37%), Gaps = 28/123 (22%)
Query: 125 NHQVRSKLDELKRTELDRLRELAKRQYELSEGKAVPDAPGHVDHNNPHSF--EINDLHKL 182
+ KL+ L L+R EL LS+ + + D + + ++ I + ++
Sbjct: 2 KPSLLEKLESL----LERYEELEAL---LSDPEVISDPDEYRKLSKEYAELEPIVEKYRE 54
Query: 183 IVQVTNDLAEADRKRRELFKEYELQKRYERDQKLSLMTDQEKEEFLKKEAEEIRKRKSNI 242
+ DL +A +E+ E D E E ++E +E+ + +
Sbjct: 55 YKKAQEDLEDA----KEMLAE---------------EKDPEMREMAEEEIKELEAKIEEL 95
Query: 243 DKA 245
++
Sbjct: 96 EEE 98
>gnl|CDD|236025 PRK07476, eutB, threonine dehydratase; Provisional.
Length = 322
Score = 28.4 bits (64), Expect = 8.6
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 439 QAEVDRLVREGKIPSIPP 456
QAEV+RLVRE + +PP
Sbjct: 127 QAEVERLVREEGLTMVPP 144
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 28.6 bits (65), Expect = 8.7
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 9/54 (16%)
Query: 190 LAEADRKRRELFKEYELQKRYERDQKLSLMTDQEKE-----EFLKKEAEEIRKR 238
L EA++ + EL ++ E + E L+ + EKE + KKEA+EI K
Sbjct: 543 LKEAEKLKEELEEKKEKLQEEED----KLLEEAEKEAQQAIKEAKKEADEIIKE 592
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 28.5 bits (65), Expect = 8.7
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 189 DLAEADRKRRELFKEYELQKRYERDQKLS-----LMTDQEKEEFLKKEAEEIRKRKSNID 243
+L E D +RREL E E + + ER+ LS E E L E +E+++ ++
Sbjct: 29 ELLELDEERRELQTELE-ELQAERNA-LSKEIGQAKRKGEDAEALIAEVKELKEEIKALE 86
Query: 244 KA 245
Sbjct: 87 AE 88
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 0.132 0.377
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,444,195
Number of extensions: 2604616
Number of successful extensions: 3700
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3536
Number of HSP's successfully gapped: 225
Length of query: 476
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 375
Effective length of database: 6,457,848
Effective search space: 2421693000
Effective search space used: 2421693000
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: 61 (27.3 bits)