RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4727
(253 letters)
>gnl|CDD|216239 pfam01007, IRK, Inward rectifier potassium channel.
Length = 336
Score = 353 bits (909), Expect = e-123
Identities = 135/224 (60%), Positives = 175/224 (78%), Gaps = 2/224 (0%)
Query: 22 YGAKQVTEECPEAIFILCLQSIVGVMIQAFMVGIVFAKLSRPKKRTQTLLFSRNAVICQR 81
YG + +TEECP AIF+L LQSI+G +I AFM+G +FAK++RPKKR +TL+FS +AVI R
Sbjct: 100 YGFRCITEECPLAIFLLILQSILGCIINAFMIGCIFAKMARPKKRAETLIFSHHAVIALR 159
Query: 82 DGELCLMFRVGDMRRSHIIEAHVRAQLIRKKVTLEGELLPFYQQELKVGGDGIEDKIFFI 141
DG+LCLMFRVGD+R+SH++EAHVRAQL++ +VT EGE +P +Q ++KVG D D+IF +
Sbjct: 160 DGKLCLMFRVGDLRKSHLVEAHVRAQLLKSRVTPEGEFIPLHQIDIKVGFDTGSDRIFLV 219
Query: 142 WPTTIVHKINPMSPLYTLSAADMLRERFEIVVILEGVIESTGMTTQARSSYLPNEILWGH 201
P TI H I+ SPLY LSA D+ FEIVVILEG +ESTGMT QAR+SYLP EILWGH
Sbjct: 220 SPLTICHVIDERSPLYDLSAQDLKSADFEIVVILEGTVESTGMTCQARTSYLPEEILWGH 279
Query: 202 RFETLVSFKKETGEHEVNYGLFNNTYEVHTPLCSAQALDQLLAI 245
RFE +VS + G+++V+Y F+ TYEV TP CSA+ LD+ +I
Sbjct: 280 RFEPVVSLEN--GKYKVDYSQFHKTYEVPTPDCSARELDEEKSI 321
>gnl|CDD|220084 pfam08974, DUF1877, Domain of unknown function (DUF1877). This
domain is found in a set of hypothetical bacterial
proteins.
Length = 165
Score = 28.9 bits (65), Expect = 1.9
Identities = 20/95 (21%), Positives = 30/95 (31%), Gaps = 22/95 (23%)
Query: 129 VGGDGIEDKIFFIWPTT---IVHKINPMSPLYTLSAADMLRERFEIVVILE-----GVIE 180
+G D +I I + + D LR+RF+ E G+ +
Sbjct: 76 LGEDLGYGPARYITAEEVKEIAEALESLD-------FDDLRKRFDAEEFKEAEIYPGIWD 128
Query: 181 STGMTTQARSSYLPNEILWGHRFETLVSFKKETGE 215
S + E L FE L F K+ E
Sbjct: 129 SEEEKDEIF------EELK-EYFEELKKFYKKAAE 156
>gnl|CDD|130279 TIGR01212, TIGR01212, radical SAM protein, TIGR01212 family. This
family has a cluster of conserved Cys residues
suggestive of Fe-S cluster binding. Members belong to
the radical-SAM family of putative This uncharacterized
protein family shows significant similarity to
TIGR01211, a longer protein that is a histone
acetyltransferase at its C-terminus and is a subunit of
RNA polymerase II (in yeast). This family lacks the GNAT
acetyltransferase domain [Unknown function, Enzymes of
unknown specificity].
Length = 302
Score = 29.0 bits (65), Expect = 2.7
Identities = 15/65 (23%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 158 TLSAADMLRERFEIVVILEGVIESTGMTTQARSSYLPNEILWGHRFETLVSFKKETGEHE 217
T + ++L+E +E + + V+ G++ R +P+E+L + L + + E
Sbjct: 89 TYAPVEVLKEMYEQALSYDDVV---GLSVGTRPDCVPDEVL-----DLLAEYVERGYEVW 140
Query: 218 VNYGL 222
V GL
Sbjct: 141 VELGL 145
>gnl|CDD|200504 cd11243, Sema_7A, The Sema domain, a protein interacting module, of
semaphorin 7A (Sema7A, also called CD108). Sema7A plays
regulatory roles in both immune and nervous systems.
Unlike other semaphorins, which act as repulsive
guidance cues, Sema7A enhances central and peripheral
axon growth and is required for proper axon tract
formation during embryonic development. Sema7A also
plays a critical role in the negative regulation of T
cell activation and function. Sema7A is a
membrane-anchored member of the semaphorin family of
proteins. Semaphorins are regulatory molecules in the
development of the nervous system and in axonal
guidance. They also play important roles in other
biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 414
Score = 29.0 bits (65), Expect = 2.7
Identities = 23/106 (21%), Positives = 41/106 (38%), Gaps = 3/106 (2%)
Query: 135 EDKIFFIWPTTIVHKINPMSPLYTLSAADMLRERFEIVVILEGVIESTGMTTQARSSYLP 194
+DKI++ + K P + A + +E L ST + + P
Sbjct: 166 QDKIYYFFREDNEDK-GPEAEPNISRVARLCKEDQGGTSSLSTSKWSTFLKARLVCGD-P 223
Query: 195 NEILWGHRFETLVSFKKETGEHEVNYGLFNNTYEVHTPLCSAQALD 240
+ +R + + KE V YG+F+NT+ + +CS D
Sbjct: 224 ATPMNFNRLQDVFLLPKEEWREAVVYGVFSNTWG-SSAVCSYSLGD 268
>gnl|CDD|214890 smart00893, ETF, Electron transfer flavoprotein domain. Electron
transfer flavoproteins (ETFs) serve as specific electron
acceptors for primary dehydrogenases, transferring the
electrons to terminal respiratory systems. They can be
functionally classified into constitutive,
"housekeeping" ETFs, mainly involved in the oxidation of
fatty acids (Group I), and ETFs produced by some
prokaryotes under specific growth conditions, receiving
electrons only from the oxidation of specific substrates
(Group II). ETFs are heterodimeric proteins composed of
an alpha and beta subunit, and contain an FAD cofactor
and AMP. ETF consists of three domains: domains I and II
are formed by the N- and C-terminal portions of the
alpha subunit, respectively, while domain III is formed
by the beta subunit. Domains I and III share an almost
identical alpha-beta-alpha sandwich fold, while domain
II forms an alpha-beta-alpha sandwich similar to that of
bacterial flavodoxins. FAD is bound in a cleft between
domains II and III, while domain III binds the AMP
molecule. Interactions between domains I and III
stabilise the protein, forming a shallow bowl where
domain II resides. This entry represents the N-terminal
domain of both the alpha and beta subunits from Group I
and Group II ETFs.
Length = 185
Score = 27.6 bits (62), Expect = 5.1
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 148 HKINPMSPLYTLSAADMLRERFEIVVILEG 177
INP+ L L AA L+E+ E+ ++ G
Sbjct: 7 ALINPVD-LEALEAARRLKEKGEVTAVVVG 35
>gnl|CDD|165272 PHA02967, PHA02967, hypothetical protein; Provisional.
Length = 128
Score = 26.9 bits (59), Expect = 5.6
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 36 FILCLQSIVGVMIQAFM----VGIVFAKLSRPKKRTQTLLFSRNAVICQRDGEL 85
+IL + IV ++I F + F L++P K + L + + C+ DG L
Sbjct: 29 YILVFEVIVALIIINFFFKEEILYAFFPLAKPPKNSINSLLDKTFLKCEEDGSL 82
>gnl|CDD|224706 COG1793, CDC9, ATP-dependent DNA ligase [DNA replication,
recombination, and repair].
Length = 444
Score = 27.7 bits (62), Expect = 7.4
Identities = 7/44 (15%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 95 RR---SHIIEAHVRAQLI-RKKVTLEGELLPFYQQELKVGGDGI 134
RR ++++ + ++ R + E F + +++G +G+
Sbjct: 247 RRALLEELVKSSDKIEIAERIPFSDAEEGEAFLEAAIELGLEGV 290
>gnl|CDD|99983 cd03812, GT1_CapH_like, This family is most closely related to the
GT1 family of glycosyltransferases. capH in
Staphylococcus aureus has been shown to be required for
the biosynthesis of the type 1 capsular polysaccharide
(CP1).
Length = 358
Score = 27.2 bits (61), Expect = 9.0
Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 15/64 (23%)
Query: 116 EGELLPFYQQELKVGGDGIEDKIFFIWPTTIVHKINPMSPLYTLSAADM-----LRERFE 170
+GEL + + KV G+EDK+ F+ + + + + L A D+ L E
Sbjct: 231 DGELE--EEIKKKVKELGLEDKVIFL---GVRNDVPEL-----LQAMDVFLFPSLYEGLP 280
Query: 171 IVVI 174
+V+I
Sbjct: 281 LVLI 284
>gnl|CDD|237025 PRK11929, PRK11929, putative bifunctional
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate
ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-
alanine ligase; Provisional.
Length = 958
Score = 27.4 bits (61), Expect = 9.0
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 4/57 (7%)
Query: 160 SAADMLRERFEIVVILEGVIESTGMTT--QARSSYLPNEILWGHRFETLVSFKKETG 214
A R RF + V+ + S G TT + ++ L T +F E G
Sbjct: 592 RLATAWRARFSLPVV--AITGSNGKTTTKEMIAAILAAWQGEDRVLATEGNFNNEIG 646
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
0.322 0.137 0.401
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,792,578
Number of extensions: 1217591
Number of successful extensions: 905
Number of sequences better than 10.0: 1
Number of HSP's gapped: 904
Number of HSP's successfully gapped: 14
Length of query: 253
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 158
Effective length of database: 6,723,972
Effective search space: 1062387576
Effective search space used: 1062387576
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 (21.9 bits)
S2: 58 (26.1 bits)