RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3135
(229 letters)
>gnl|CDD|223398 COG0321, LipB, Lipoate-protein ligase B [Coenzyme metabolism].
Length = 221
Score = 190 bits (486), Expect = 3e-61
Identities = 75/217 (34%), Positives = 111/217 (51%), Gaps = 18/217 (8%)
Query: 1 MTKQVQLVR-LGLVSYSNGIKIQEHYVNKLKTLISKPSNHSGTLLLLEHKPVYTIGIRSL 59
++ LVR LGLV Y ++ E + + + + L+EH PVYT G
Sbjct: 6 SKPKIILVRELGLVDYQEAWQLMETFTDARADGGTPD-----EIWLVEHPPVYTAGQAG- 59
Query: 60 KEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKHFTPSIKWFVQSIEQT 119
E L +T+RGG +T+HGPGQLVAYPI++LK ++ +V+++EQ
Sbjct: 60 -----KAEHLLMPDDIPVVQTDRGGQVTYHGPGQLVAYPILDLKRPKLDVREYVRALEQA 114
Query: 120 -----QEFSLNAGLIPKYTGVFLDDEYKVCAIGVHSSLYITHHGLAINCDTDLTWFNHIT 174
E+ + A P GV++++E K+ AIG+ +T HGLA+N + DL+ FN I
Sbjct: 115 VINTLAEYGIEAERRPDRPGVWVEEERKIAAIGIRIRRGVTFHGLALNVNMDLSPFNRIV 174
Query: 175 PCGIKDKQVTSLSKHLSKDITVDTVVPLFKKHFESVF 211
PCG +VTSLS L +TVD V F +
Sbjct: 175 PCGYAGMEVTSLSD-LGPPVTVDEVAKALVAAFAKLL 210
>gnl|CDD|184638 PRK14345, PRK14345, lipoate-protein ligase B; Provisional.
Length = 234
Score = 158 bits (402), Expect = 2e-48
Identities = 79/220 (35%), Positives = 108/220 (49%), Gaps = 27/220 (12%)
Query: 5 VQLVRLGLVSYSNGIKIQEHYVNKLKTLISKPSNHSG--TLLLLEHKPVYTIGIRSLKEY 62
+++ RLGLV Y +Q + L G TLLLLEH VYT G R+
Sbjct: 12 IEVRRLGLVDYQEAWDLQ-------RELADARVAGEGPDTLLLLEHPAVYTAGKRTEPH- 63
Query: 63 DENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKHFTPSIKWFVQSIEQT--- 119
E + G +RGG IT+HGPGQLV YPII L + +V+ +E+
Sbjct: 64 ----ERPTD--GTPVVDVDRGGKITWHGPGQLVGYPIIKLAE-PLDVVDYVRRLEEALIA 116
Query: 120 --QEFSLNAGLIPKYTGVFL--DD---EYKVCAIGVHSSLYITHHGLAINCDTDLTWFNH 172
+ LNAG + +GV++ D + K+ AIG+ S +T HG A+NCD DL F+
Sbjct: 117 VCADLGLNAGRVDGRSGVWVPADGGRPDRKIAAIGIRVSRGVTMHGFALNCDNDLAAFDA 176
Query: 173 ITPCGIKDKQVTSLSKHLSKDITVDTVVPLFKKHFESVFE 212
I PCGI D VT+LS L + +TV VV +
Sbjct: 177 IVPCGISDAGVTTLSAELGRTVTVAEVVDPVAAALCDALD 216
>gnl|CDD|232877 TIGR00214, lipB, lipoate-protein ligase B. Involved in lipoate
biosynthesis as the main determinant of the
lipoyl-protein ligase activity required for lipoylation
of enzymes such as alpha-ketoacid dehydrogenases.
Involved in activation and re-activation (following
denaturation) of lipoyl-protein ligases (calcium
ion-dependant process) [Protein fate, Protein
modification and repair].
Length = 184
Score = 150 bits (380), Expect = 9e-46
Identities = 63/174 (36%), Positives = 96/174 (55%), Gaps = 10/174 (5%)
Query: 43 LLLLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINL 102
++L+EH PVYT G E+ L + A+ ++ RGG +T+HGPGQ V Y I++L
Sbjct: 15 IMLVEHYPVYTQGQAGKTEH---LLFDPDIPPAEVVQSERGGQVTYHGPGQQVMYVILDL 71
Query: 103 KHFTPSIKWFVQSIEQT-----QEFSLNAGLIPKYTGVFLDDEYKVCAIGVHSSLYITHH 157
K F ++W V +EQT E + I TGV+++ KV ++G+ T H
Sbjct: 72 KRFQLDVRWLVTQLEQTVIITLAELGIEGEPIADATGVWVE-GKKVASLGIRVRRGCTFH 130
Query: 158 GLAINCDTDLTWFNHITPCGIKDKQVTSLSKHLSKDITVDTVVPLFKKHFESVF 211
GLA+N + DL+ F+HI PCG +++ SL++ L TV+ V PL K F +
Sbjct: 131 GLALNINMDLSPFSHINPCGYAGREMGSLNQFLPG-ATVENVAPLLIKAFAELL 183
>gnl|CDD|172824 PRK14348, PRK14348, lipoate-protein ligase B; Provisional.
Length = 221
Score = 142 bits (359), Expect = 3e-42
Identities = 81/203 (39%), Positives = 115/203 (56%), Gaps = 11/203 (5%)
Query: 7 LVRLGLVSYSNGIKIQEHYVNKLKTLISKPSNHSGTLLLLEHKPVYTIGIRSLKEYDENL 66
L+ YS Q + + L ++ ++ EH VYT+G RS KE + L
Sbjct: 5 TTDWELIPYSEAWSRQTEWFDALVHAKQNGESYENRIIFCEHPHVYTLG-RSGKENNMLL 63
Query: 67 -ELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKHFTPSIKWFVQSIEQT-----Q 120
E +L +GA Y +RGG IT+HGPGQLV YPI+NL+ F +K +V +E+
Sbjct: 64 GEEQLKTIGATLYHIDRGGDITYHGPGQLVCYPILNLEEFGLGLKEYVHLLEEAVIRVCA 123
Query: 121 EFSLNAGLIPKYTGVFLDDEY----KVCAIGVHSSLYITHHGLAINCDTDLTWFNHITPC 176
+ + AG + K TGV+L+ + K+CAIGV SS Y+T HGLA+N +TDL +F++I PC
Sbjct: 124 SYGVVAGRLEKATGVWLEGDTSRARKICAIGVRSSHYVTMHGLALNVNTDLRYFSYIHPC 183
Query: 177 GIKDKQVTSLSKHLSKDITVDTV 199
G DK VTSL + L I + V
Sbjct: 184 GFIDKGVTSLQQELGHSIDMAEV 206
>gnl|CDD|237683 PRK14344, PRK14344, lipoate-protein ligase B; Provisional.
Length = 223
Score = 142 bits (360), Expect = 3e-42
Identities = 69/199 (34%), Positives = 110/199 (55%), Gaps = 14/199 (7%)
Query: 12 LVSYSNGIKIQEHYVNKLKTLISKPSNHSGTLLLLEHKPVYTIGIRSLKEYDENLELKLN 71
+V + + K Q+ + + LI PSN + LLEH+ YT+G R E +NL LN
Sbjct: 26 IVPFEDAWKWQKEW---QQALIEDPSN-PQAVWLLEHQLCYTLG-RGASE--DNLLFSLN 78
Query: 72 KLGADFYKTNRGGLITFHGPGQLVAYPIINLKHFTPSIKWFVQSIEQT-----QEFSLNA 126
AD ++ +RGG +T H PGQLV Y +++L+ F + W+++ +EQ + ++
Sbjct: 79 NPPADVFRIDRGGEVTHHMPGQLVTYLVLDLRRFNKDLNWYLRQLEQVLIDVLADLGIDG 138
Query: 127 GLIPKYTGVFLDDEYKVCAIGVHSSLYITHHGLAINCDTDLTWFNHITPCGIKDKQVTSL 186
+ TGV++ ++ KV +IG+ +IT HG ++N D DL FN I PCG++ QV L
Sbjct: 139 ERLDGLTGVWIGNK-KVASIGIGCRRWITQHGFSLNVDCDLEGFNKIVPCGLEGCQVGRL 197
Query: 187 SKHLSKDITVDTVVPLFKK 205
S + + + V PL KK
Sbjct: 198 SDWI-PGLNIKEVKPLLKK 215
>gnl|CDD|237680 PRK14341, PRK14341, lipoate-protein ligase B; Provisional.
Length = 213
Score = 124 bits (313), Expect = 2e-35
Identities = 67/179 (37%), Positives = 96/179 (53%), Gaps = 19/179 (10%)
Query: 45 LLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKH 104
LLEH P+YT G S K E+L L+ Y+T RGG T+HGPGQ VAY +++LK
Sbjct: 40 LLEHPPLYTAGT-SAK--AEDL---LDPDRFPVYETGRGGQYTYHGPGQRVAYVMLDLKR 93
Query: 105 FTPSIKWFVQSIEQT-----QEFSLNAGLIPKYTGVFLDD-------EYKVCAIGVHSSL 152
++ FV ++E+ F++ GV++ E K+ AIGV
Sbjct: 94 RRRDVRAFVAALEEWIIATLAAFNIRGERREDRVGVWVRRPDKGSGAEDKIAAIGVRLRR 153
Query: 153 YITHHGLAINCDTDLTWFNHITPCGIKDKQVTSLSKHLSKDITVDTVVPLFKKHFESVF 211
+++ HG++IN + DL+ F+ I PCGI + VTSL L +T+D V KK FE VF
Sbjct: 154 WVSFHGISINVEPDLSHFSGIVPCGISEHGVTSLVD-LGLPVTMDDVDAALKKAFEKVF 211
>gnl|CDD|237681 PRK14342, PRK14342, lipoate-protein ligase B; Provisional.
Length = 213
Score = 106 bits (267), Expect = 1e-28
Identities = 60/176 (34%), Positives = 88/176 (50%), Gaps = 21/176 (11%)
Query: 45 LLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKH 104
L+EH PV+T G E+ LN +++RGG +T+HGPGQLV Y +++LK
Sbjct: 40 LVEHPPVFTQGQAGKPEH------ILNPGDIPVVQSDRGGQVTYHGPGQLVMYVLLDLKR 93
Query: 105 FTPSIKWFVQSIEQT-----QEFSLNAGLIPKYTGVFLDDEYKVCAIGVHSSLYITH--- 156
++ V +IEQT E+ + A P GV++ D K+ ++G L I
Sbjct: 94 LKLGVRQLVTAIEQTVINTLAEYGIEAHAKPDAPGVYV-DGKKIASLG----LRIRRGCS 148
Query: 157 -HGLAINCDTDLTWFNHITPCGIKDKQVTSLSKHLSKDITVDTVVPLFKKHFESVF 211
HGLA+N + DL+ F I PCG ++T LS L TVD V P ++
Sbjct: 149 FHGLALNVNMDLSPFLRINPCGYAGLEMTQLSD-LGGPATVDEVAPRLLAELLALL 203
>gnl|CDD|172823 PRK14347, PRK14347, lipoate-protein ligase B; Provisional.
Length = 209
Score = 103 bits (257), Expect = 4e-27
Identities = 67/188 (35%), Positives = 101/188 (53%), Gaps = 22/188 (11%)
Query: 12 LVSYSNGIKIQEHYVNKLKTLISKPSNHSGTLLLLEHKPVYTIGIRSLKEYDENLELKLN 71
Y +K+ E YVNK+ + + + L+EH VYT G +E EL LN
Sbjct: 10 FADYQVTLKLMEDYVNKVIS-----DHEPEIVYLVEHSEVYTAGTNYKQE-----EL-LN 58
Query: 72 KLGADFYKTNRGGLITFHGPGQLVAYPIINLK--HFTPSIKWFVQSIEQ-----TQEFSL 124
T RGG TFHGPGQ V YPI+NL + +K +++ +E+ F +
Sbjct: 59 YGDIPVIYTGRGGKFTFHGPGQRVIYPILNLASPNRHKDLKLYIKMLEEWIINSLNYFGI 118
Query: 125 NAGLIPKYTGVFL---DDEY-KVCAIGVHSSLYITHHGLAINCDTDLTWFNHITPCGIKD 180
A +I G+++ DE+ K+ AIGV ++T+HG+AIN TDL+ F+ I PCG+++
Sbjct: 119 KAYIIKDKVGIWVKVRKDEFAKIAAIGVRVRKWVTYHGVAINISTDLSKFSGIIPCGLEN 178
Query: 181 KQVTSLSK 188
VTSL++
Sbjct: 179 SLVTSLNQ 186
>gnl|CDD|237684 PRK14346, PRK14346, lipoate-protein ligase B; Provisional.
Length = 230
Score = 92.5 bits (230), Expect = 5e-23
Identities = 56/177 (31%), Positives = 82/177 (46%), Gaps = 38/177 (21%)
Query: 43 LLLLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINL 102
L + EH PVYT G L +++ LN TNRGG +T+HGPGQ+VAYP+I+L
Sbjct: 35 LWICEHPPVYTQG---LAGKADHV---LNPGDIPVVATNRGGQVTYHGPGQVVAYPLIDL 88
Query: 103 KHFTPSIKWFVQSIEQT-----QEFSLNAGLIPKYTGVF--LDDEY-------------- 141
+ +K +V IE+ F + + G++ LDD +
Sbjct: 89 RRAGYFVKEYVYRIEEAVIRTLAHFGVTGHRVAGAPGIYVRLDDPFSHAALPQRPQKRGG 148
Query: 142 -----------KVCAIGVHSSLYITHHGLAINCDTDLTWFNHITPCGIKDKQVTSLS 187
K+ A+G+ S + T+HG+A+N DL F+ I PCG Q LS
Sbjct: 149 GAPQPPFRGLGKIAALGIKVSRHCTYHGVALNVAMDLEPFSRINPCGYAGLQTVDLS 205
>gnl|CDD|237682 PRK14343, PRK14343, lipoate-protein ligase B; Provisional.
Length = 235
Score = 86.4 bits (214), Expect = 1e-20
Identities = 48/185 (25%), Positives = 82/185 (44%), Gaps = 20/185 (10%)
Query: 2 TKQVQLVRLGLVSYSNGIKIQEHYVNKLKTLISKPSNHSGTLLLLEHKPVYTIGIRSLKE 61
V + G Y + + ++ ++ + L+EH PVYT+G
Sbjct: 12 ALPVTVRWRGREPYEACFDAMRAFTD------ARTADTPDEIWLVEHPPVYTLGQAGDPA 65
Query: 62 YDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKHFTPSIKWFVQSIEQT-- 119
+ L + G K +RGG IT+HGPGQ+VAY +++L+ ++ V IEQ
Sbjct: 66 H-----LLVADSGIPLVKVDRGGQITYHGPGQVVAYLLLDLRRRKLMVRELVTRIEQAVI 120
Query: 120 ---QEFSLNAGLIPKYTGVFLDDEY----KVCAIGVHSSLYITHHGLAINCDTDLTWFNH 172
++L + G+++ K+ A+G+ ++HGL++N DL F
Sbjct: 121 DTLAAYNLASERKAGAPGIYVASGPHQGAKIAALGLKIRNGCSYHGLSLNVKMDLRPFLA 180
Query: 173 ITPCG 177
I PCG
Sbjct: 181 INPCG 185
>gnl|CDD|172825 PRK14349, PRK14349, lipoate-protein ligase B; Provisional.
Length = 220
Score = 84.6 bits (209), Expect = 4e-20
Identities = 49/153 (32%), Positives = 75/153 (49%), Gaps = 16/153 (10%)
Query: 45 LLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLKH 104
L EH PVYT+G E+ LN +RGG +T+HGPGQ++AY + +L+
Sbjct: 35 LCEHAPVYTLGQAGRPEH------LLNPGLIPVVHCDRGGQVTYHGPGQVLAYTLFDLRR 88
Query: 105 FTPSIKWFVQSIEQTQEFSL-NAGLI-----PKYTGVFLDDE----YKVCAIGVHSSLYI 154
++ +V +EQ +L GL P G+++ K+ A+GV
Sbjct: 89 AGLYVREYVDMLEQATLATLRELGLEQACRKPGAPGIYVPQPGGELAKIAALGVKVRNGY 148
Query: 155 THHGLAINCDTDLTWFNHITPCGIKDKQVTSLS 187
+HGLA+N D DL+ F I PCG + + L+
Sbjct: 149 AYHGLALNIDMDLSPFLGINPCGYEGLRTVDLA 181
>gnl|CDD|217367 pfam03099, BPL_LplA_LipB, Biotin/lipoate A/B protein ligase family.
This family includes biotin protein ligase,
lipoate-protein ligase A and B. Biotin is covalently
attached at the active site of certain enzymes that
transfer carbon dioxide from bicarbonate to organic
acids to form cellular metabolites. Biotin protein
ligase (BPL) is the enzyme responsible for attaching
biotin to a specific lysine at the active site of biotin
enzymes. Each organism probably has only one BPL. Biotin
attachment is a two step reaction that results in the
formation of an amide linkage between the carboxyl group
of biotin and the epsilon-amino group of the modified
lysine. Lipoate-protein ligase A (LPLA) catalyzes the
formation of an amide linkage between lipoic acid and a
specific lysine residue in lipoate dependent enzymes.
The unusual biosynthesis pathway of lipoic acid is
mechanistically intertwined with attachment of the
cofactor.
Length = 124
Score = 57.4 bits (139), Expect = 8e-11
Identities = 22/127 (17%), Positives = 40/127 (31%), Gaps = 17/127 (13%)
Query: 54 IGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGPGQLVAYPIINLK----HFTPSI 109
+G R +E L + G + GG +H PG +AY ++ L +
Sbjct: 1 LGRRQKSTKEEVNLEGLEEGGVVVARRQTGGRRVWHSPGGNLAYSLLLLPELKSFKPSDL 60
Query: 110 KWFVQSIEQTQEFSLNA-GLIPKYTGVFLD---------DEYKVCAIGVHSSLYITHHGL 159
+V + L A G G+++ + K+ I T H
Sbjct: 61 PAYVLLLVLA---VLEALGPKAGIPGIWVRIKWPNDLLVNGKKIAGILQEIRRGGTLHHG 117
Query: 160 AINCDTD 166
+ +
Sbjct: 118 TLGIGIN 124
>gnl|CDD|223173 COG0095, LplA, Lipoate-protein ligase A [Coenzyme metabolism].
Length = 248
Score = 30.0 bits (68), Expect = 0.85
Identities = 43/213 (20%), Positives = 67/213 (31%), Gaps = 40/213 (18%)
Query: 37 SNHSGTLLLLEHKPVYT-IGIRSLKEYDENLELKLNKLGADFYKTNR---GGLITFHGPG 92
+ GTL L P +G + NLE + D R GG FH G
Sbjct: 28 LSEGGTLRLYWWNPPTVVLGRFQNTLPEVNLE----YVKEDGIPVVRRPSGGGAVFHDLG 83
Query: 93 QLVAYPII-NLKHFTPSI--------KWFVQSIEQTQEFSLNAGLIPKYTGVFLDDEYKV 143
L Y +I + S + + ++ A + V D K+
Sbjct: 84 NL-NYSVITPDEGGLESYETLYKFLLQPVIDALR-ALGVE-GAECPGRNDLVV--DGKKI 138
Query: 144 CAIGVHSSLYIT-----HHG---LAINCDTDLTWFNHITPCGIKDKQVTSLSKHLS---- 191
T HHG L I+ + + IK K + S+ + ++
Sbjct: 139 SGSAQ----RRTKGRILHHGTLLLDIDLELLARVLR-VPKEKIKSKGIKSVRERVANLEE 193
Query: 192 -KDITVDTVVPLFKKHFESVFECECSEVELDEE 223
I+V+ + + F V E E EL E
Sbjct: 194 LLKISVEEFLEALLEAFFKVLGVELEEYELTPE 226
>gnl|CDD|220429 pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of
this family of bacterial proteins comprise various
hypothetical proteins, as well as CRISPR (clustered
regularly interspaced short palindromic repeats)
associated proteins, conferring resistance to infection
by certain bacteriophages.
Length = 77
Score = 27.5 bits (62), Expect = 1.4
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 8/45 (17%)
Query: 193 DITVDTVVPLFKKHFE--------SVFECECSEVELDEEIKHLNS 229
DI D K + SVFE E +E +L + K L
Sbjct: 8 DIKEDKRRRKVAKLLKKYGQRVQYSVFEGELTEAQLAKLKKRLKK 52
>gnl|CDD|224262 COG1343, COG1343, CRISPR-associated protein Cas2 [Defense
mechanisms].
Length = 89
Score = 27.6 bits (62), Expect = 1.7
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 10/43 (23%)
Query: 193 DITVD----TVVPLFKKHF-----ESVFECECSEVELDEEIKH 226
DI+ D V K SVFE E + +L E++K
Sbjct: 8 DISDDGERVRKVAKLLKRGLQRVQNSVFEGELTPADL-EKLKR 49
>gnl|CDD|238147 cd00240, TFIIFa, Transcription initiation factor IIF, alpha
subunit, N-terminal region of RAP74. Subunit of
transcription initiation complex involved in initiation,
elongation and promoter escape.Tetramer of 2 alpha and 2
beta TFIIF subunits interacts directly with RNA
polymerase II. TFIIF inhibits non-specific transcription
initiation by PolII and recruits the polymerase to the
preinitiation complex on promoter DNA for site-specific
transcription initiation. The PolII/TFIIF-complex
attaches through direct interactions of TFIIF with
promoter DNA, TFIIB and the TAF250 subunit of TFIID, and
provides scaffolding for addition of TFIIE and TFIIH.
Together with TFIIE, TFIIF participates in DNA strand
separation (open complex formation). N-terminal domains
of RAP30 and RAP74 co-fold to form a single core
structure, a triple barrel heterodimer, and has
pseudo-2-fold symmetry.
Length = 162
Score = 27.9 bits (62), Expect = 3.2
Identities = 15/79 (18%), Positives = 32/79 (40%), Gaps = 9/79 (11%)
Query: 52 YTIGIRSLKEYDENLELKLNKLGADFYKTNRGGLITFHGP---------GQLVAYPIINL 102
+ I R + ++ L++ G +K R G + + G+ AYP+
Sbjct: 74 FGIAQRKYRPENQPWILEVEGKGQRQFKGIREGGVNENATYYVFTMQPDGEFEAYPVGEW 133
Query: 103 KHFTPSIKWFVQSIEQTQE 121
+F P ++ + E+ +E
Sbjct: 134 YNFNPVARYKTLTAEEAEE 152
>gnl|CDD|193533 cd05657, M42_glucanase_like, M42 Peptidase, Endoglucanase-like
subfamily. Peptidase M42 family, glucanase (endo-1
4-beta-glucanase or endoglucanase)-like subfamily.
Proteins in this subfamily are co-catalytic
metallopeptidases, found in archaea and bacteria. They
show similarity to cellulase and
endo-1,4-beta-glucanase (endoglucanase) which typically
bind two zinc or cobalt atoms. Some of the enzymes
exhibit typical aminopeptidase specificity, whereas
others are also capable of N-terminal deblocking
activity, i.e. hydrolyzing acylated N-terminal
residues. Many of these enzymes are assembled either as
tetrahedral dodecamers or as octahedral tetracosameric
structures, with the active site located on the inside
such that substrate sizes are limited, indicating
function as possible peptide scavengers.
Length = 336
Score = 27.1 bits (61), Expect = 7.5
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 18/69 (26%)
Query: 26 VNKLKTLISKPSNHSGTLLLLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKTNRGGL 85
++ LK L++ PS SG YT E E +E +L LG + TN+G L
Sbjct: 3 LDVLKELLNIPSP-SG----------YT------DEAVEYVEKELEALGYEPELTNKGAL 45
Query: 86 I-TFHGPGQ 93
I T G
Sbjct: 46 IATLPGKDD 54
>gnl|CDD|187856 cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2.
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;
Cas2 is present in majority of CRISPR/Cas systems along
with Cas1; RNAse specific to U-rich regions; Possesses
an RRM/ferredoxin fold.
Length = 79
Score = 25.5 bits (57), Expect = 9.2
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 8/38 (21%)
Query: 193 DITVDTVVPLFKKHFE--------SVFECECSEVELDE 222
DI+ D K + SVFE E +E +L +
Sbjct: 6 DISDDKRRNKVAKLLKKYLQRVQNSVFEGELTEAQLKK 43
>gnl|CDD|128949 smart00709, Zpr1, Duplicated domain in the epidermal growth factor-
and elongation factor-1alpha-binding protein Zpr1. Also
present in archaeal proteins.
Length = 160
Score = 26.5 bits (59), Expect = 9.3
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 197 DTVVPLFKKHFESVFECE-C----SEVELDEEI 224
T +P F++ FECE C +EV+ I
Sbjct: 16 LTSIPYFREVIIMSFECEHCGYRNNEVKSGGAI 48
>gnl|CDD|218234 pfam04733, Coatomer_E, Coatomer epsilon subunit. This family
represents the epsilon subunit of the coatomer complex,
which is involved in the regulation of intracellular
protein trafficking between the endoplasmic reticulum
and the Golgi complex.
Length = 288
Score = 27.1 bits (60), Expect = 9.3
Identities = 20/84 (23%), Positives = 33/84 (39%), Gaps = 4/84 (4%)
Query: 42 TLLLLEHKPVYTIGIRSLKEYDENLELKLNKLGADFYKT--NRGGLITFHG-PGQLVAYP 98
T LLL + V + + +E + L+ L+K D +T N G P ++
Sbjct: 198 TPLLLNGQAVCCMCLGRYEEAESLLKEALDKDAKD-PETLINLVVCALHLGKPAEVSNRN 256
Query: 99 IINLKHFTPSIKWFVQSIEQTQEF 122
+ LK P+ E+ EF
Sbjct: 257 LSQLKLSHPTHPLVKDLNEKEAEF 280
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
0.319 0.137 0.409
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,451,128
Number of extensions: 1062282
Number of successful extensions: 836
Number of sequences better than 10.0: 1
Number of HSP's gapped: 812
Number of HSP's successfully gapped: 31
Length of query: 229
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 135
Effective length of database: 6,768,326
Effective search space: 913724010
Effective search space used: 913724010
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 (21.7 bits)
S2: 57 (25.7 bits)