RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8115
(218 letters)
>gnl|CDD|240260 PTZ00084, PTZ00084, 40S ribosomal protein S3; Provisional.
Length = 220
Score = 199 bits (508), Expect = 8e-65
Identities = 83/107 (77%), Positives = 95/107 (88%)
Query: 86 FVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELT 145
FVADGVF AEL+EFL+RELAEDGYSGVE+R TP RTEIII ATRT+ VLGDKGRRIRELT
Sbjct: 11 FVADGVFYAELNEFLSRELAEDGYSGVEVRVTPIRTEIIIRATRTREVLGDKGRRIRELT 70
Query: 146 SVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRR 192
S++QKRF F +G +EL+AE+V RGLCA+AQAESLRYKL+ GL VRR
Sbjct: 71 SLLQKRFGFPEGKVELFAERVENRGLCAMAQAESLRYKLLEGLPVRR 117
>gnl|CDD|239096 cd02413, 40S_S3_KH, K homology RNA-binding (KH) domain of the
eukaryotic 40S small ribosomal subunit protein S3. S3
is part of the head region of the 40S ribosomal subunit
and is believed to interact with mRNA as it threads its
way from the latch into the channel. The KH motif is a
beta-alpha-alpha-beta-beta unit that folds into an
alpha-beta structure with a three stranded beta-sheet
interupted by two contiguous helices. In general, KH
binds single-stranded RNA or DNA. It is found in a wide
variety of proteins including ribosomal proteins,
transcription factors and post-transcriptional modifiers
of mRNA.
Length = 81
Score = 158 bits (403), Expect = 8e-51
Identities = 67/81 (82%), Positives = 74/81 (91%)
Query: 90 GVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQ 149
GVF AEL+EFLTRELAEDGYSGVE+R TP RTEIII ATRTQNVLG+KGRRIRELTS+VQ
Sbjct: 1 GVFYAELNEFLTRELAEDGYSGVEVRVTPTRTEIIIRATRTQNVLGEKGRRIRELTSLVQ 60
Query: 150 KRFKFADGAIELYAEKVATRG 170
KRF F +G++ELYAEKVA RG
Sbjct: 61 KRFNFPEGSVELYAEKVANRG 81
>gnl|CDD|130081 TIGR01008, rpsC_E_A, ribosomal protein S3, eukaryotic/archaeal
type. This model describes ribosomal protein S3 of the
eukaryotic cytosol and of the archaea. TIGRFAMs model
TIGR01009 describes the bacterial/organellar type,
although the organellar types have a different
architecture with long insertions and may score poorly
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 195
Score = 119 bits (300), Expect = 7e-34
Identities = 52/107 (48%), Positives = 65/107 (60%), Gaps = 2/107 (1%)
Query: 86 FVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELT 145
FVA+GV R +DEFL +EL E GYSGV++R TP T++II A R V+G GRRIRELT
Sbjct: 5 FVAEGVKRTLIDEFLKKELREAGYSGVDVRVTPLGTKVIIFAERPGLVIGRGGRRIRELT 64
Query: 146 SVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRR 192
+QK KF ++ E+V L A QAE + L GL RR
Sbjct: 65 EKLQK--KFGLENPQIDVEEVENPELNAQVQAERIARSLERGLHFRR 109
>gnl|CDD|223170 COG0092, RpsC, Ribosomal protein S3 [Translation, ribosomal
structure and biogenesis].
Length = 233
Score = 95.8 bits (239), Expect = 2e-24
Identities = 36/108 (33%), Positives = 56/108 (51%), Gaps = 2/108 (1%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIREL 144
++ V ++ EFL +EL+ G SGVEI TP T + I A R V+G KG I +L
Sbjct: 17 EYAKLLVEDLKIREFLEKELSNAGISGVEIERTPKGTRVTIHAARPGLVIGKKGSNIEKL 76
Query: 145 TSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRR 192
++K F + +++ E+V L A AES+ +L ++ RR
Sbjct: 77 RKELEKLFGKEN--VQINIEEVKKPELDAQLVAESIAQQLERRVSFRR 122
>gnl|CDD|239094 cd02411, archeal_30S_S3_KH, K homology RNA-binding domain (KH) of
the archaeal 30S small ribosomal subunit S3 protein. S3
is part of the head region of the 30S ribosomal subunit
and is believed to interact with mRNA as it threads its
way from the latch into the channel. The KH motif is a
beta-alpha-alpha-beta-beta unit that folds into an
alpha-beta structure with a three stranded beta-sheet
interupted by two contiguous helices. In general, KH
binds single-stranded RNA or DNA. It is found in a wide
variety of proteins including ribosomal proteins,
transcription factors and post-transcriptional modifiers
of mRNA.
Length = 85
Score = 74.6 bits (184), Expect = 8e-18
Identities = 33/79 (41%), Positives = 48/79 (60%)
Query: 82 VSLQFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRI 141
V +FV +GV R +DE+L +EL GY G+EI TP T+I I A R V+G G+ I
Sbjct: 1 VERKFVNEGVKRTMIDEYLEKELERAGYGGMEILRTPLGTQITIYAERPGMVIGRGGKNI 60
Query: 142 RELTSVVQKRFKFADGAIE 160
RELT +++ +F + I+
Sbjct: 61 RELTEILETKFGLENPQID 79
>gnl|CDD|235247 PRK04191, rps3p, 30S ribosomal protein S3P; Reviewed.
Length = 207
Score = 75.7 bits (187), Expect = 5e-17
Identities = 39/101 (38%), Positives = 56/101 (55%), Gaps = 12/101 (11%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIREL 144
+FV +G+ + +DE+L +EL GY G+EI+ TP T I I A R V+G G+ IREL
Sbjct: 6 KFVEEGLKKVMIDEYLAKELYRAGYGGMEIKKTPLGTRITIYAERPGMVIGRGGKNIREL 65
Query: 145 TSVVQKRFKFADGAI--------ELYAEKVATRGLCAIAQA 177
T +++K+F + I EL A VA R +A A
Sbjct: 66 TEILEKKFGLENPQIDVKEVENPELNARVVAFR----LANA 102
>gnl|CDD|203707 pfam07650, KH_2, KH domain.
Length = 77
Score = 69.9 bits (172), Expect = 4e-16
Identities = 22/72 (30%), Positives = 37/72 (51%)
Query: 95 ELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFKF 154
E+ EFL EL + G S +EI TP R ++I ++ V+G G I++L ++K +
Sbjct: 1 EIREFLAVELKKAGISDIEIERTPNRVIVVIRTSQPGIVIGKGGSNIKKLGKELRKLIEL 60
Query: 155 ADGAIELYAEKV 166
+ L +V
Sbjct: 61 EGKKVYLNIVEV 72
>gnl|CDD|239092 cd02409, KH-II, KH-II (K homology RNA-binding domain, type II).
KH binds single-stranded RNA or DNA. It is found in a
wide variety of proteins including ribosomal proteins
(e.g. ribosomal protein S3), transcription factors (e.g.
NusA_K), and post-transcriptional modifiers of mRNA
(e.g. hnRNP K). There are two different KH domains that
belong to different protein folds, but they share a
single KH motif. The KH motif is a
beta-alpha-alpha-beta-beta unit that folds into an
alpha-beta structure with a three stranded beta-sheet
interupted by two contiguous helices. In addition to
their KH core domain, KH-II proteins have an N-terminal
alpha helical extension while KH-I proteins have a
C-terminal alpha helical extension.
Length = 68
Score = 57.3 bits (139), Expect = 2e-11
Identities = 29/60 (48%), Positives = 36/60 (60%), Gaps = 2/60 (3%)
Query: 97 DEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQ--NVLGDKGRRIRELTSVVQKRFKF 154
EFL + LA G SGVEI TP R EIII+ R Q V+G KG+ IR L ++QK +
Sbjct: 1 REFLKKLLAPAGISGVEIERTPDRIEIIIVVARGQPGLVIGKKGQNIRALQKLLQKLLRK 60
>gnl|CDD|130082 TIGR01009, rpsC_bact, ribosomal protein S3, bacterial type. This
model describes the bacterial type of ribosomal protein
S3. Chloroplast and mitochondrial forms have large,
variable inserts between conserved N-terminal and
C-terminal domains. This model recognizes all bacterial
forms and many chloroplast forms above the trusted
cutoff score. TIGRFAMs model TIGR01008 describes S3 of
the eukaryotic cytosol and of the archaea [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 211
Score = 35.4 bits (82), Expect = 0.013
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 98 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKR 151
++ +EL+ G S VEI + + I R V+G KG I +L +QK
Sbjct: 41 NYIKKELSNAGISDVEIERPADKIRVTIHTARPGIVIGKKGSEIEKLRKDLQKL 94
>gnl|CDD|239095 cd02412, 30S_S3_KH, K homology RNA-binding (KH) domain of the
prokaryotic 30S small ribosomal subunit protein S3. S3
is part of the head region of the 30S ribosomal subunit
and is believed to interact with mRNA as it threads its
way from the latch into the channel. The KH motif is a
beta-alpha-alpha-beta-beta unit that folds into an
alpha-beta structure with a three stranded beta-sheet
interupted by two contiguous helices. In general, KH
binds single-stranded RNA or DNA. It is found in a wide
variety of proteins including ribosomal proteins,
transcription factors and post-transcriptional modifiers
of mRNA.
Length = 109
Score = 32.1 bits (74), Expect = 0.055
Identities = 17/56 (30%), Positives = 28/56 (50%)
Query: 98 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFK 153
+F+ ++L + G S +EI R E+ I R ++G KG I +L +QK
Sbjct: 40 KFIKKKLKKAGISRIEIERKADRVEVTIHTARPGIIIGKKGAGIEKLRKELQKLLG 95
>gnl|CDD|112753 pfam03954, Lectin_N, Hepatic lectin, N-terminal domain.
Length = 138
Score = 32.5 bits (74), Expect = 0.069
Identities = 34/121 (28%), Positives = 48/121 (39%), Gaps = 29/121 (23%)
Query: 32 PWRPGPGVPTTPLTQTISNGATVRDSPLGFSVLFRVLVNTIGVSNSLSICVSLQFVAD-G 90
P R GP P+ PL Q + +G + LG S+L V+V IG NS Q +
Sbjct: 14 PLRKGPP-PSQPLLQRLCSGTRLLLLSLGLSILLLVVVCVIGSQNS-------QLQEELR 65
Query: 91 VFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQK 150
R F + LAE + A TQ G GR++ L S ++K
Sbjct: 66 TLRETFSNFTSSTLAE------------------VQALSTQG--GSVGRKMTSLESKLEK 105
Query: 151 R 151
+
Sbjct: 106 Q 106
>gnl|CDD|197652 smart00322, KH, K homology RNA-binding domain.
Length = 68
Score = 30.0 bits (68), Expect = 0.16
Identities = 7/38 (18%), Positives = 16/38 (42%)
Query: 117 TPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFKF 154
P E++I A + ++G G I+++ +
Sbjct: 1 DPVTIEVLIPADKVGLIIGKGGSTIKKIEEETGVKIDI 38
>gnl|CDD|237397 PRK13488, PRK13488, chemoreceptor glutamine deamidase CheD;
Provisional.
Length = 157
Score = 31.4 bits (72), Expect = 0.17
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 13/73 (17%)
Query: 133 VLGDKGRRIRELTSVV---------QKRFKFADGAIELYAEKVATRGLCAIAQAESLRYK 183
+L D+G++I L V+ + K+AD AI L E++ G A+ L K
Sbjct: 32 ILYDRGKKIGGLAHVMLPESSGAGDRNPGKYADTAIPLLIEEMVKLG----ARKSKLEAK 87
Query: 184 LIGGLAVRRYNSD 196
L GG A+ ++S+
Sbjct: 88 LAGGAAMFDFSSN 100
>gnl|CDD|234722 PRK00310, rpsC, 30S ribosomal protein S3; Reviewed.
Length = 232
Score = 29.4 bits (67), Expect = 1.2
Identities = 17/56 (30%), Positives = 27/56 (48%)
Query: 98 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFK 153
+FL ++L + G S +EI R + I R V+G KG I +L ++K
Sbjct: 41 KFLKKKLKKAGVSRIEIERPAKRVRVTIHTARPGIVIGKKGAEIEKLRKELEKLTG 96
>gnl|CDD|234062 TIGR02924, ICDH_alpha, isocitrate dehydrogenase. This family of
mainly alphaproteobacterial enzymes is a member of the
isocitrate/isopropylmalate dehydrogenase superfamily
described by pfam00180. Every member of the seed of this
model appears to have a TCA cycle lacking only a
determined isocitrate dehydrogenase. The precise
identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH --
1.1.1.42) is unclear [Energy metabolism, TCA cycle].
Length = 473
Score = 29.7 bits (67), Expect = 1.2
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 60 GFSVLFRVLVNTIGVSNSLSICVSLQFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPA 119
G L L T+G+ ++ CVS + L+ + RE ED Y+G+E R TP
Sbjct: 76 GHKSLNVTLRKTLGLYANIRPCVSYHPFIETKS-PNLNIVIVRENEEDLYTGIEYRQTPD 134
Query: 120 RTEIIIMATRT 130
E + TR+
Sbjct: 135 TYECTKLITRS 145
>gnl|CDD|238250 cd00443, ADA_AMPD, Adenosine/AMP deaminase. Adenosine deaminases
(ADAs) are present in pro- and eukaryotic organisms and
catalyze the zinc dependent irreversible deamination of
adenosine nucleosides to inosine nucleosides and
ammonia. The eukaryotic AMP deaminase catalyzes a
similar reaction leading to the hydrolytic removal of an
amino group at the 6 position of the adenine nucleotide
ring, a branch point in the adenylate catabolic pathway.
Length = 305
Score = 29.2 bits (66), Expect = 1.6
Identities = 13/41 (31%), Positives = 18/41 (43%)
Query: 94 AELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVL 134
A + + E AED +E+R TP E T+ Q L
Sbjct: 45 ARALKEVIEEFAEDNVQYLELRTTPRLLETEKGLTKEQYWL 85
>gnl|CDD|214348 CHL00048, rps3, ribosomal protein S3.
Length = 214
Score = 28.6 bits (65), Expect = 1.8
Identities = 15/71 (21%), Positives = 30/71 (42%)
Query: 122 EIIIMATRTQNVLGDKGRRIRELTSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLR 181
++II + ++ KGR I EL +QK + + + +V AE +
Sbjct: 69 QVIIYTGFPKLLIERKGRGIEELQINLQKELNSVNRKLNINITEVKKPYGEPNILAEYIA 128
Query: 182 YKLIGGLAVRR 192
+L ++ R+
Sbjct: 129 GQLENRVSFRK 139
>gnl|CDD|233314 TIGR01211, ELP3, histone acetyltransferase, ELP3 family. The
Saccharomyces cerevisiae member YPL086C has been
characterized in vitro as an N-terminal
acetyltransferase for all four core histones. It is a
component of the RNA polymerase II holoenzyme,
designated Elp3p for Elongator Protein 3. Members of
this family are found in eukaryotes and archaea. These
proteins are part of the larger set of GNAT
acetyltransferases [Transcription, DNA-dependent RNA
polymerase].
Length = 522
Score = 28.9 bits (65), Expect = 2.2
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRF 116
+ GV ++ L E + R + E G + IR
Sbjct: 349 PLIVAGVKKSNLRELVYRRMKEHGITCRCIRC 380
>gnl|CDD|224164 COG1243, ELP3, Histone acetyltransferase [Transcription / Chromatin
structure and dynamics].
Length = 515
Score = 28.9 bits (65), Expect = 2.4
Identities = 9/39 (23%), Positives = 17/39 (43%)
Query: 85 QFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEI 123
+ + DGV ++ L E + + E+G IR +
Sbjct: 341 ELIVDGVKKSNLRELVENRMREEGIKCRCIRCREVGIVV 379
>gnl|CDD|235601 PRK05773, PRK05773, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
Validated.
Length = 219
Score = 28.1 bits (63), Expect = 2.8
Identities = 13/48 (27%), Positives = 20/48 (41%)
Query: 136 DKGRRIRELTSVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYK 183
D+ IREL VV+ + A E + E + G I +R +
Sbjct: 112 DRALTIRELHKVVELAKTNPEEAREEFYENFYSPGHVPILIGRGIRER 159
>gnl|CDD|226945 COG4579, COG4579, Isocitrate dehydrogenase kinase/phosphatase
[Signal transduction mechanisms].
Length = 578
Score = 28.2 bits (63), Expect = 4.0
Identities = 22/74 (29%), Positives = 28/74 (37%), Gaps = 12/74 (16%)
Query: 118 PARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFKFAD---------GAIELYAEKV-- 166
P+ E++I T Q + R E+TS Q RF+ AD I LY V
Sbjct: 2 PSGLELLIAQTILQG-FDAQYGRFLEVTSGAQARFEQADWHAVQQAMKNRIHLYDHHVGL 60
Query: 167 ATRGLCAIAQAESL 180
L I ES
Sbjct: 61 VVEQLRCITDGEST 74
>gnl|CDD|182682 PRK10729, nudF, ADP-ribose pyrophosphatase NudF; Provisional.
Length = 202
Score = 27.8 bits (62), Expect = 4.1
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 91 VFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIM 126
+F E+ + RE+ E G++ V + F P R E++++
Sbjct: 32 LFNGEMSGEVRREIFERGHAAVLLPFDPVRDEVVLI 67
>gnl|CDD|197331 cd09097, Deadenylase_CCR4, C-terminal deadenylase domain of CCR4
and related domains. This subfamily contains the
C-terminal catalytic domain of the deadenylases,
Saccharomyces cerevisiae Ccr4p and two vertebrate
homologs (CCR4a and CCR4b), and related domains. CCR4
belongs to the large EEP
(exonuclease/endonuclease/phosphatase) superfamily that
contains functionally diverse enzymes that share a
common catalytic mechanism of cleaving phosphodiester
bonds. CCR4 is the major deadenylase subunit of the
CCR4-NOT transcription complex, which contains two
deadenylase subunits and several noncatalytic subunits.
The other deadenylase subunit, Caf1 (called Pop2 in
yeast), is a DEDD-type protein and does not belong in
this superfamily. Saccharomyces cerevisiae CCR4 (or
Ccr4p) is a 3'-5' poly(A) RNA and ssDNA exonuclease. It
is the catalytic subunit of the yeast mRNA deadenylase
(Ccr4p/Pop2p/Not complex). This complex participates in
various ways in mRNA metabolism, including transcription
initiation and elongation, and mRNA degradation. Ccr4p
degrades both poly(A) and single-stranded DNA. There are
two vertebrate homologs of Ccr4p, CCR4a (also called
CCR4-NOT transcription complex subunit 6 or CNOT6) and
CCR4b (also called CNOT6-like or CNOT6L), which
independently associate with other components to form
distinct CCR4-NOT multisubunit complexes. The nuclease
domain of CNOT6 and CNOT6L exhibits Mg2+-dependent
deadenylase activity, with specificity for poly (A) RNA
as substrate. CCR4a is a component of P-bodies and is
necessary for foci formation. CCR4b regulates p27/Kip1
mRNA levels, thereby influencing cell cycle progression.
They both contribute to the prevention of cell death by
regulating insulin-like growth factor-binding protein 5.
Length = 329
Score = 27.7 bits (62), Expect = 4.5
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 82 VSLQFVADGVFRAELDEFLTRELAEDGYSGVEIRFTPART 121
+ LQ V + +F EL + GY GV + A+T
Sbjct: 46 LCLQEVETDQYE----DFFLPELKQHGYDGVFKPKSRAKT 81
>gnl|CDD|217825 pfam03975, CheD, CheD chemotactic sensory transduction. This
chemotaxis protein stimulates methylation of MCP
proteins. The chemotaxis machinery of Bacillus subtilis
is similar to that of the well characterized system of
Escherichia coli. However, B. subtilis contains several
chemotaxis genes not found in the E. coli genome, such
as CheC and CheD, indicating that the B. subtilis
chemotactic system is more complex. CheD plays an
important role in chemotactic sensory transduction for
many organisms. CheD deamidates other B. subtilis
chemoreceptors including McpB and McpC. Deamidation by
CheD is required for B. subtilis chemoreceptors to
effectively transduce signals to the CheA kinase. The
structure of a complex between the signal-terminating
phosphatase, CheC, and the receptor-modifying deamidase,
CheD, reveals how CheC mimics receptor substrates to
inhibit CheD and how CheD stimulates CheC phosphatase
activity. CheD resembles other cysteine deamidases from
bacterial pathogens that inactivate host Rho-GTPases.
Phospho-CheY, the intracellular signal and CheC target,
stabilises the CheC-CheD complex and reduces
availability of CheD. A model is proposed whereby CheC
acts as a CheY-P-induced regulator of CheD; CheY-P would
cause CheC to sequester CheD from the chemoreceptors,
inducing adaptation of the chemotaxis system.
Length = 111
Score = 26.7 bits (60), Expect = 4.7
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 146 SVVQKRFKFADGAIELYAEKVATRGLCAIAQAESLRYKLIGG 187
++ D A+EL ++ G A+ E L KL GG
Sbjct: 10 DGDSNPGRYGDTAMELLINELLKLG----ARRERLEAKLFGG 47
>gnl|CDD|233242 TIGR01035, hemA, glutamyl-tRNA reductase. This enzyme, together
with glutamate-1-semialdehyde-2,1-aminomutase
(TIGR00713), leads to the production of
delta-amino-levulinic acid from Glu-tRNA [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 417
Score = 27.0 bits (60), Expect = 8.0
Identities = 9/50 (18%), Positives = 15/50 (30%)
Query: 94 AELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRE 143
+L + L AE + T R EI + + + E
Sbjct: 24 IKLKKALDTLKAEPSIEEAMVLSTCNRVEIYAVVDNLHEGKSALLQILAE 73
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
0.321 0.136 0.403
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,001,664
Number of extensions: 1030904
Number of successful extensions: 810
Number of sequences better than 10.0: 1
Number of HSP's gapped: 807
Number of HSP's successfully gapped: 31
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.7 bits)