RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14403
(168 letters)
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 40.5 bits (95), Expect = 2e-04
Identities = 31/132 (23%), Positives = 61/132 (46%), Gaps = 9/132 (6%)
Query: 28 RQVQDKRYYEGLLQLKIRDLTNEITRLKRQIELSAKEHATFL----LYDKRVKEMATELT 83
RQ+++ L+ ++ L E+ +L+ ++E +E +R++E+ EL
Sbjct: 709 RQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELE 768
Query: 84 ELQGKLSDYNLTMDKVNT-----QTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQH 138
L+ L+ ++++ Q + ++EEE E D R LE R + +
Sbjct: 769 SLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQ 828
Query: 139 QLHELEAEIEKL 150
++ ELE EIE+L
Sbjct: 829 EIEELEEEIEEL 840
Score = 38.5 bits (90), Expect = 0.001
Identities = 23/115 (20%), Positives = 53/115 (46%), Gaps = 6/115 (5%)
Query: 40 LQLKIRDLTNEITRLKRQIELSAKEHATFLL----YDKRVKEMATELTELQGKLSDYNLT 95
L+ + +L ++ L+RQ+E +E A R++E+ EL EL+ +L +
Sbjct: 700 LEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQER 759
Query: 96 MDKVNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
++++ + + +EE +L+ + + E + + +L E E ++ L
Sbjct: 760 LEEL--EEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDAL 812
Score = 35.5 bits (82), Expect = 0.009
Identities = 25/116 (21%), Positives = 56/116 (48%), Gaps = 3/116 (2%)
Query: 40 LQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKV 99
L+ ++ +L E+ L+ + E E ++ +E+ EL EL+ +L++ ++K+
Sbjct: 854 LEKELEELKEELEELEAEKEELEDELKEL---EEEKEELEEELRELESELAELKEEIEKL 910
Query: 100 NTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKLDMIDI 155
+ + + E LE+ E E + T ++ + ++ LE EIE L +++
Sbjct: 911 RERLEELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEIEALGPVNL 966
Score = 31.6 bits (72), Expect = 0.18
Identities = 26/128 (20%), Positives = 52/128 (40%), Gaps = 13/128 (10%)
Query: 40 LQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKE-----------MATELTELQGK 88
L+ +I +L EI+ L+ ++E E + +KE T L EL+
Sbjct: 293 LKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQL 352
Query: 89 LSDYNLTMDKVNTQ--TNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAE 146
L++ +++ + + ++EE + LR L E E + + ++ LE
Sbjct: 353 LAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEER 412
Query: 147 IEKLDMID 154
+E+L
Sbjct: 413 LERLSERL 420
Score = 31.6 bits (72), Expect = 0.20
Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 17/121 (14%)
Query: 40 LQLKIRDLTNEITRLKRQIE--------LSAKEHATFLLYDKRVKEMATELTELQGKLSD 91
L+ + +L ++ +L+RQ E + L ++KE+ EL EL+ +LS
Sbjct: 191 LEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSR 250
Query: 92 YNLTMDKVNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKLD 151
++ Q + + E+E EL++ LEE E + Q +L EL+ EIE+L+
Sbjct: 251 LEEELE--ELQEELEEAEKEIEELKSE-------LEELREELEELQEELLELKEEIEELE 301
Query: 152 M 152
Sbjct: 302 G 302
Score = 30.1 bits (68), Expect = 0.64
Identities = 25/113 (22%), Positives = 51/113 (45%), Gaps = 3/113 (2%)
Query: 40 LQLKIRDLTNEITRLKRQI-ELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDK 98
+ + +L + L+ EL K A ++ + + EL EL+ +L++ +++
Sbjct: 342 RETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEE 401
Query: 99 VNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKLD 151
+ + I +EE L + L+E E + Q +L EL E+E+L+
Sbjct: 402 LKRE--IESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELE 452
Score = 29.3 bits (66), Expect = 1.1
Identities = 26/115 (22%), Positives = 62/115 (53%), Gaps = 6/115 (5%)
Query: 40 LQLKIRDLTNEITRLKRQIELSAKEHATFLL----YDKRVKEMATELTELQGKLSDYNLT 95
LQ ++ +L E+ +R+++ +E + ++ ++E+ E+ EL+ KL +
Sbjct: 791 LQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEE 850
Query: 96 MDKVNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
++++ + + +++EE EL A + L+E E+ + + +L ELE+E+ +L
Sbjct: 851 LEELEKE--LEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAEL 903
Score = 28.5 bits (64), Expect = 2.1
Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 9/120 (7%)
Query: 40 LQLKIRDLTNEITRLKRQIE----LSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLT 95
L+ ++ L + +LK +IE ++ ++E L L+ +L
Sbjct: 763 LEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQR 822
Query: 96 MDKV-----NTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
+++ + I ++EE+ EL + + LEE E + + + ELE E+++L
Sbjct: 823 RERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKEL 882
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 39.2 bits (92), Expect = 5e-04
Identities = 24/111 (21%), Positives = 46/111 (41%), Gaps = 15/111 (13%)
Query: 45 RDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQTN 104
L E+ LK+Q+EL A+E A + EL L+G ++ +
Sbjct: 145 HALQQEVLTLKQQLELQAREKAQ---SQALAEAQQQELVALEGLAAEL---------EEK 192
Query: 105 IADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHEL-EAEIEKLDMID 154
++E + +L+ ++ +++ E + + + EL E E L ID
Sbjct: 193 QQELEAQLEQLQEKAAETSQERKQKRKEITDQAAKRLELSEEETRIL--ID 241
>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 = 39.3 bits (92), Expect = 5e-04
Identities = 25/124 (20%), Positives = 61/124 (49%), Gaps = 17/124 (13%)
Query: 40 LQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKV 99
L ++ D + +I ++++IE +E +R++E+ +L+ L+ ++ + + ++
Sbjct: 707 LSQELSDASRKIGEIEKEIEQLEQEEEKL---KERLEELEEDLSSLEQEIENVKSELKEL 763
Query: 100 NTQTNIADIEEEYLELRAA-NDIE-----------TRHLEEQFTERSKKQHQLHELEAEI 147
+ I ++EE+ +L A ND+E L + E S+ + +L E+E ++
Sbjct: 764 EAR--IEELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKL 821
Query: 148 EKLD 151
+L
Sbjct: 822 NRLT 825
Score = 31.2 bits (71), Expect = 0.23
Identities = 29/126 (23%), Positives = 56/126 (44%), Gaps = 10/126 (7%)
Query: 33 KRYYEG-LLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSD 91
KR YEG L + L + ++RQ+ +E + + E+ L E++ L +
Sbjct: 220 KREYEGYELLKEKEALERQKEAIERQLASLEEELEKL---TEEISELEKRLEEIEQLLEE 276
Query: 92 YNLTMDK------VNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEA 145
N + + + I ++E E L + + R LE+ +K + ++ +L A
Sbjct: 277 LNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLA 336
Query: 146 EIEKLD 151
EIE+L+
Sbjct: 337 EIEELE 342
Score = 28.5 bits (64), Expect = 2.3
Identities = 33/163 (20%), Positives = 67/163 (41%), Gaps = 19/163 (11%)
Query: 6 RLVTQQG----LSGLRTGSALRGPGFRQVQDKRYYEGLLQL--KIRDLTNEITRLKRQIE 59
R+VT +G SG TG + G + + L +L ++ L E++ L Q E
Sbjct: 640 RMVTLEGELFEKSGAMTGGSRAPRG-GILFSRSEPAELQRLRERLEGLKRELSSL--QSE 696
Query: 60 LSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYLEL---R 116
L E+ L + + + + ++ E++ ++ +K+ + + ++EE+ L
Sbjct: 697 LRRIENRLDELSQE-LSDASRKIGEIEKEIEQLEQEEEKLKER--LEELEEDLSSLEQEI 753
Query: 117 AANDIETRHLEEQFTERSKKQHQLHELEAEIEKL-DMIDISMW 158
E + LE + + LH+LE + L + S
Sbjct: 754 ENVKSELKELEA---RIEELEEDLHKLEEALNDLEARLSHSRI 793
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial 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. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 34.3 bits (79), Expect = 0.028
Identities = 21/119 (17%), Positives = 60/119 (50%), Gaps = 8/119 (6%)
Query: 39 LLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDK 98
LL + +L + L+R+I + + L +++++E++ ++ L ++ + +++
Sbjct: 814 LLNEEAANLRERLESLERRIA-ATERRLEDL--EEQIEELSEDIESLAAEIEELEELIEE 870
Query: 99 VNTQTNIAD-----IEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKLDM 152
+ ++ +EE LR+ + + L E ++RS+ + +L EL ++ +L++
Sbjct: 871 LESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLEL 929
Score = 32.0 bits (73), Expect = 0.16
Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 8/114 (7%)
Query: 43 KIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQ 102
+I +L +I L+ +I K A K ++E+ EL +L+ +L + + + +
Sbjct: 678 EIEELEEKIEELEEKIAELEKALAE---LRKELEELEEELEQLRKELEELSRQISALRKD 734
Query: 103 TNIADIEEEYLELRAANDIETR-----HLEEQFTERSKKQHQLHELEAEIEKLD 151
+ E E LE R A + +EE + + +L E EAEIE+L+
Sbjct: 735 LARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELE 788
Score = 30.8 bits (70), Expect = 0.36
Identities = 32/122 (26%), Positives = 55/122 (45%), Gaps = 21/122 (17%)
Query: 43 KIRDLTNEITR----LKRQIEL--------SAKEHATFLLYDKRVKEMATELTELQGKLS 90
++ D+ NE+ R L+RQ E + L R++E+ EL ELQ +L
Sbjct: 190 RLEDILNELERQLKSLERQAEKAERYKELKAELRELELALLVLRLEELREELEELQEELK 249
Query: 91 DYNLTMDKVNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
+ +++ + ++EE+ ELR LEE+ E Q +L+ L EI +L
Sbjct: 250 EAEEELEE--LTAELQELEEKLEELRLEV----SELEEEIEEL---QKELYALANEISRL 300
Query: 151 DM 152
+
Sbjct: 301 EQ 302
Score = 30.4 bits (69), Expect = 0.52
Identities = 30/112 (26%), Positives = 49/112 (43%), Gaps = 14/112 (12%)
Query: 39 LLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDK 98
L+L+I L NEI RL+ ++E R + + E+ EL KL + +
Sbjct: 390 QLELQIASLNNEIERLEARLERLED----------RRERLQQEIEELLKKLEE----AEL 435
Query: 99 VNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
Q + ++EEE EL+ + LEE E + + L E E+ +L
Sbjct: 436 KELQAELEELEEELEELQEELERLEEALEELREELEEAEQALDAAERELAQL 487
Score = 28.9 bits (65), Expect = 1.4
Identities = 27/118 (22%), Positives = 49/118 (41%), Gaps = 11/118 (9%)
Query: 40 LQLKIRDLTNEITRLKRQIELSAKEHATFLL----YDKRVKEMATELTELQGKLSDYNLT 95
L+ ++ L NE L+ + L E + + E+ EL EL+ KL+ L
Sbjct: 871 LESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELR 930
Query: 96 MD--KVNTQTNIADIEEEY-LELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
++ +V + EEY L L A + + + + +L LE +I++L
Sbjct: 931 LEGLEVRIDNLQERLSEEYSLTLEEA----EALENKIEDDEEEARRRLKRLENKIKEL 984
>gnl|CDD|99977 cd03805, GT1_ALG2_like, This family is most closely related to the
GT1 family of glycosyltransferases. ALG2, a
1,3-mannosyltransferase, in yeast catalyzes the
mannosylation of Man(2)GlcNAc(2)-dolichol diphosphate
and Man(1)GlcNAc(2)-dolichol diphosphate to form
Man(3)GlcNAc(2)-dolichol diphosphate. A deficiency of
this enzyme causes an abnormal accumulation of
Man1GlcNAc2-PP-dolichol and Man2GlcNAc2-PP-dolichol,
which is associated with a type of congenital disorders
of glycosylation (CDG), designated CDG-Ii, in humans.
Length = 392
Score = 32.6 bits (75), Expect = 0.080
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 71 YDKRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYLELRAA 118
YD RV E L ELQ + L D+V +I+D ++E L L +A
Sbjct: 254 YDPRVAENVEYLEELQRLAEELLLLEDQVIFLPSISDSQKELL-LSSA 300
>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 32.7 bits (75), Expect = 0.086
Identities = 23/121 (19%), Positives = 44/121 (36%), Gaps = 21/121 (17%)
Query: 44 IRDLTNEITRLKRQIELSAKEH-------------ATFLLYDKRVKEMATELTELQGKLS 90
+ L ++K +IE K R+ ++ +L ELQ L
Sbjct: 257 LNKLNTAAAKIKSKIEQFQKVIKMYEKGGVCPTCTQQISEGPDRITKIKDKLKELQHSLE 316
Query: 91 DYNLTMDKVNTQTN-IADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEK 149
+ +D++ + + ++ LEL+ N I T K+ ++A IE+
Sbjct: 317 KLDTAIDELEEIMDEFNEQSKKLLELK--NKISTNKQSLITLVDKAKK-----VKAAIEE 369
Query: 150 L 150
L
Sbjct: 370 L 370
Score = 28.4 bits (64), Expect = 2.1
Identities = 10/91 (10%), Positives = 31/91 (34%), Gaps = 8/91 (8%)
Query: 26 GFRQVQDKRYYEGLLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTEL 85
++ + + + + ++ LK +I + + + K++ + EL
Sbjct: 314 SLEKLDTAIDELEEIMDEFNEQSKKLLELKNKIS---TNKQSLITLVDKAKKVKAAIEEL 370
Query: 86 QGKLSDYN-----LTMDKVNTQTNIADIEEE 111
Q + D L + +++ +E
Sbjct: 371 QAEFVDNAEELAKLQDELDKIVKTKSELVKE 401
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 32.6 bits (75), Expect = 0.097
Identities = 24/109 (22%), Positives = 47/109 (43%), Gaps = 9/109 (8%)
Query: 43 KIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQ 102
+ DL I L+ +++ +E A +D+R+ E+ EL L+ +L+ + +
Sbjct: 420 ALEDLRRRIAALELELDALEREAALGADHDERLAELRAELAALEAELAALE---ARWQQE 476
Query: 103 TNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKLD 151
+ E L LRA + + + + + + QL ELEA +
Sbjct: 477 KELV---EAILALRAELEADA---DAPADDDAALRAQLAELEAALASAQ 519
>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 = 31.2 bits (71), Expect = 0.24
Identities = 29/121 (23%), Positives = 51/121 (42%), Gaps = 18/121 (14%)
Query: 37 EGLLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTM 96
GL+Q IRDL +++ +R F+ +R E+ +L +L+ K+ + +
Sbjct: 7 LGLVQ--IRDLNEDVSAFQR----------KFVNEVRRCDEVERKLRKLESKIKKLGIPL 54
Query: 97 DKVN------TQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
D+EEE L+L A +LE E ++ + L+ L+ E L
Sbjct: 55 KDTGGKPDVPPSKEFLDLEEEILDLEAEIKEVEENLESLEKEINELEEWLNVLDEEKSFL 114
Query: 151 D 151
D
Sbjct: 115 D 115
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 30.5 bits (70), Expect = 0.41
Identities = 28/109 (25%), Positives = 50/109 (45%), Gaps = 18/109 (16%)
Query: 44 IRDLTNEITRLKRQIELSAKEHATFLL--YDKRVKEMATELTELQGKLSDYNLTMDKVNT 101
+ + E +K++ L AKE L ++K ++E EL +L+ +L +D+
Sbjct: 44 LEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLDR--- 100
Query: 102 QTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
+ E LE R LE++ E +KQ +L + E E+E+L
Sbjct: 101 -------KLELLEKR------EEELEKKEKELEQKQQELEKKEEELEEL 136
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 30.6 bits (69), Expect = 0.45
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 66 ATFLLYDKRVKEMATELTELQGKL--SDYNLTMDKVNTQTNIADIEEEYLE 114
A L D R+ MA L L L + L M++ + + N AD+E Y+E
Sbjct: 276 AAIFLRDLRIPAMAAALLVLSAILVGGLWPLLMEQFSVRPNAADVESPYIE 326
>gnl|CDD|218661 pfam05622, HOOK, HOOK protein. This family consists of several
HOOK1, 2 and 3 proteins from different eukaryotic
organisms. The different members of the human gene
family are HOOK1, HOOK2 and HOOK3. Different domains
have been identified in the three human HOOK proteins,
and it was demonstrated that the highly conserved
NH2-domain mediates attachment to microtubules, whereas
the central coiled-coil motif mediates homodimerisation
and the more divergent C-terminal domains are involved
in binding to specific organelles (organelle-binding
domains). It has been demonstrated that endogenous HOOK3
binds to Golgi membranes, whereas both HOOK1 and HOOK2
are localised to discrete but unidentified cellular
structures. In mice the Hook1 gene is predominantly
expressed in the testis. Hook1 function is necessary for
the correct positioning of microtubular structures
within the haploid germ cell. Disruption of Hook1
function in mice causes abnormal sperm head shape and
fragile attachment of the flagellum to the sperm head.
Length = 713
Score = 29.0 bits (65), Expect = 1.5
Identities = 25/91 (27%), Positives = 39/91 (42%), Gaps = 13/91 (14%)
Query: 78 MATELTELQGKLSDYNLTMDKVNT---------QTNIADIEEEYLELRAANDIETRHLEE 128
+ E +LQ +L+ + N Q+ + ++EE L AA D EE
Sbjct: 212 LQQENEKLQERLAQLEGSSLGPNQLGSKKYNLLQSQLEQLQEENFRLEAARDDYRIKCEE 271
Query: 129 QFTERSKKQHQ---LHELEAEIEKL-DMIDI 155
E ++ QH+ L L AE + L D ID+
Sbjct: 272 LEKELAELQHRNDELTSLAAESQALKDEIDV 302
>gnl|CDD|215969 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A.
Length = 427
Score = 28.3 bits (64), Expect = 1.9
Identities = 31/112 (27%), Positives = 49/112 (43%), Gaps = 14/112 (12%)
Query: 44 IRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTM-DKVNTQ 102
IRD ++ R+ IEL + V + T+LQ S NL + D
Sbjct: 252 IRDESDRGVRIV--IELKRG------ANPEVVLNKLYKKTKLQSSFSTNNLVLFDGGPKY 303
Query: 103 TNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKLDMID 154
N+ +I +E+LE R ++ R E K + +LH LE ++ L+ ID
Sbjct: 304 LNLKEILKEFLEHR--LEVYKRRKE---YLLEKLEERLHILEGLLKALNKID 350
Score = 27.1 bits (61), Expect = 5.7
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 18/61 (29%)
Query: 32 DKRYYEGLLQLKIRDLTN-EITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLS 90
+ + LL +++R LT EI +L+++IE E+ E+ EL+ L+
Sbjct: 374 SEIQADYLLDMRLRRLTKEEIEKLEKEIE-----------------ELEKEIAELEKILA 416
Query: 91 D 91
Sbjct: 417 S 417
>gnl|CDD|232965 TIGR00414, serS, seryl-tRNA synthetase. This model represents the
seryl-tRNA synthetase found in most organisms. This
protein is a class II tRNA synthetase, and is recognized
by the pfam model tRNA-synt_2b. The seryl-tRNA
synthetases of two archaeal species, Methanococcus
jannaschii and Methanobacterium thermoautotrophicum,
differ considerably and are included in a different
model [Protein synthesis, tRNA aminoacylation].
Length = 418
Score = 28.1 bits (63), Expect = 2.5
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 12/83 (14%)
Query: 68 FLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYLELRAANDIETRHLE 127
+ D K++ +E+ ELQ K ++ + + K Q D EE + E + L+
Sbjct: 32 LIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQ--KKDKIEEIKK-------ELKELK 82
Query: 128 EQFTERSKKQHQLHELEAEIEKL 150
E+ TE S L LEAE++
Sbjct: 83 EELTELSA---ALKALEAELQDK 102
>gnl|CDD|184281 PRK13729, PRK13729, conjugal transfer pilus assembly protein TraB;
Provisional.
Length = 475
Score = 27.9 bits (62), Expect = 2.7
Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 13/60 (21%)
Query: 97 DKVNT------QTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
DKV Q A ++++Y E+R D+ + +R Q ++ +L + L
Sbjct: 64 DKVRQHATTEMQVTAAQMQKQYEEIRRELDVLNK-------QRGDDQRRIEKLGQDNAAL 116
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 28.1 bits (63), Expect = 3.0
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 5/82 (6%)
Query: 74 RVKEMATELTELQGKLSDYNLTMDKVNTQT-----NIADIEEEYLELRAANDIETRHLEE 128
R +E+ EL+ +L + + N + + D+EE ELR LEE
Sbjct: 315 RREELEDRDEELRDRLEECRVAAQAHNEEAESLREDADDLEERAEELREEAAELESELEE 374
Query: 129 QFTERSKKQHQLHELEAEIEKL 150
++ ++ ELE EIE+L
Sbjct: 375 AREAVEDRREEIEELEEEIEEL 396
>gnl|CDD|129363 TIGR00261, traB, pheromone shutdown-related protein TraB. traB is
a plasmid encoded gene that functions in the shutdown of
the peptide sex pheromone cPD1 which is produced by the
plasmid free recipient cell prior to conjugative
transfer in Enterococcus faecalis. Once the recipient
acquires the plasmid, production of cPD1 is shut down.
The gene product may play another role in the other
species in the family [Unknown function, General].
Length = 380
Score = 27.9 bits (62), Expect = 3.0
Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 8/88 (9%)
Query: 41 QLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVN 100
+L +D ++I + +I K+ +L D+R + MA +L E + N+ + V
Sbjct: 151 KLLEQDALSKIMKELSKISPKVKK----VLIDERDEFMANKLLEG---EGNKNIIVAVVG 203
Query: 101 TQTNIADIEEEYLELRAANDIETRHLEE 128
+++ I +L+ N I LE+
Sbjct: 204 A-GHVSGIMRTLKKLQNKNIINLEELEK 230
>gnl|CDD|179877 PRK04778, PRK04778, septation ring formation regulator EzrA;
Provisional.
Length = 569
Score = 27.9 bits (63), Expect = 3.1
Identities = 22/119 (18%), Positives = 60/119 (50%), Gaps = 17/119 (14%)
Query: 45 RDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSD----YNLTMDKVN 100
++L EI R+K+ L+ E + +K+++ + + E+ ++++ Y+ +++
Sbjct: 327 KELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELE 386
Query: 101 -TQTNIADIEEEYLELRAA------NDIETRHLEEQFTERSKKQHQLHELEAEIEKLDM 152
+ +IE+E +L +++E R E++ +++LHE++ +EK ++
Sbjct: 387 EILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERY------RNKLHEIKRYLEKSNL 439
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 27.8 bits (62), Expect = 3.1
Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 73 KRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYLELRAA-NDIETRHLE 127
+ ++E+ EL EL ++ + +++ + A++E E L A D+ R+LE
Sbjct: 910 RDIEELEEELNELAQEVGAAKQELARMDGGSTAAELEAERESLLAQLRDLAERYLE 965
Score = 27.0 bits (60), Expect = 6.5
Identities = 17/122 (13%), Positives = 45/122 (36%), Gaps = 13/122 (10%)
Query: 43 KIRDLTNEITRLKRQIELSAKEHATFLLYDK--------RVKEMATELTELQGKLSDYNL 94
+I + E++ ++ + L + E + EL+ +++
Sbjct: 816 EIEEAEKEVSEAAAALDEAEARLTALLRAARCTTIEELLAAVERSDTYRELRKRIAALER 875
Query: 95 TMDKVNTQTNIADIEEEYL-----ELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEK 149
T+ + ++ + E EL A + R +EE E ++ ++ + E+ +
Sbjct: 876 TLVRAGGGLSLEALVAEAAALDPDELPARLEELARDIEELEEELNELAQEVGAAKQELAR 935
Query: 150 LD 151
+D
Sbjct: 936 MD 937
>gnl|CDD|197281 cd09184, PLDc_FAM83D_N, N-terminal phospholipase D-like domain of
the protein, Family with sequence similarity 83D.
N-terminal phospholipase D (PLD)-like domain of the
protein Family with sequence similarity 83D (FAM83D),
also known as spindle protein CHICA. CHICA is a
cell-cycle-regulated spindle component, which localizes
to the mitotic spindle and is both upregulated and
phosphorylated during mitosis. CHICA is required to
localize the chromokinesin Kid to the mitotic spindle
and serves as a novel interaction partner of Kid, which
is required for the generation of polar ejection forces
and chromosome congression. Since the N-terminal
PLD-like domain of FAM83D shows only trace similarity to
the PLD catalytic domain and lacks the functionally
important histidine residue, FAM83D may share a similar
three-dimensional fold with PLD enzymes, but is unlikely
to carry PLD activity.
Length = 271
Score = 27.1 bits (60), Expect = 4.2
Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 37 EGLLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDK-RVKEMATELTELQGKLSDYNL 94
E +++R +T + ++ K H F+L D +V + T GKL+ NL
Sbjct: 191 EQEKLMRVRTITGNTYYTRSGAKIIGKVHEKFMLIDGIKVATGSYSFTWTDGKLNSSNL 249
>gnl|CDD|114855 pfam06160, EzrA, Septation ring formation regulator, EzrA. During
the bacterial cell cycle, the tubulin-like cell-division
protein FtsZ polymerises into a ring structure that
establishes the location of the nascent division site.
EzrA modulates the frequency and position of FtsZ ring
formation.
Length = 559
Score = 27.1 bits (61), Expect = 4.5
Identities = 16/77 (20%), Positives = 40/77 (51%), Gaps = 5/77 (6%)
Query: 45 RDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSD----YNLTMDKVN 100
+ L E+ RL++ L+ E T +K+++E+ + +L ++++ Y+ +++
Sbjct: 323 KQLLLELDRLQQSYTLNEDELETVRELEKQLEELEAQYDQLVERIAEKKVAYSELQEELE 382
Query: 101 -TQTNIADIEEEYLELR 116
+ + +IE+E EL
Sbjct: 383 EIEKQLEEIEKEQEELS 399
>gnl|CDD|234125 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like)
[Unknown function, General].
Length = 351
Score = 27.0 bits (61), Expect = 4.7
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 6/54 (11%)
Query: 6 RLVTQ-QGLSGLRTGSALRGPGFRQVQ-DKRYYEGLLQLKIRDLTNEITRLKRQ 57
RLV LS G RGPG Q++ D+R L++ +I L E+ ++++Q
Sbjct: 127 RLVGGWTHLSRQGGGIGTRGPGETQLETDRR----LIRERIAQLKKELEKVEKQ 176
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 27.2 bits (61), Expect = 5.7
Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 1/72 (1%)
Query: 42 LKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNT 101
L + +K EL +K +KE+ E++EL+ ++ + ++++
Sbjct: 69 LNPLREEKKKVSVKSLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIERLEP 128
Query: 102 QTNIADIEEEYL 113
N D++ L
Sbjct: 129 WGNF-DLDLSLL 139
>gnl|CDD|150302 pfam09590, Env-gp36, Lentivirus surface glycoprotein. This protein
is found in feline immunodeficiency retrovirus. It
represents the surface glycoprotein which is found in
the polyprotein C-terminal to the Env protein.
Length = 591
Score = 27.2 bits (60), Expect = 5.8
Identities = 36/132 (27%), Positives = 54/132 (40%), Gaps = 22/132 (16%)
Query: 8 VTQQGLSGLRTG-SALRGPGFRQVQDKRYYEGLLQLKIRDLTNEITRLKRQIELSAK-EH 65
VT++G L G + R PG + Q+K+ Y +LQ K+++L EIT K + K
Sbjct: 25 VTEEG--PLNPGVNPFRVPGITE-QEKQEYCVILQPKLQELKGEITEGKLHEINAGKYRR 81
Query: 66 ATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYLELRAANDIETRH 125
+L Y E L S Y +K+ + DIE R
Sbjct: 82 LRYLRYS---DEQVLSSLYLLVGYSHYLGNRNKLGKLRHDIDIE--------------RQ 124
Query: 126 LEEQFTERSKKQ 137
EE+F +R K +
Sbjct: 125 AEEKFEKREKGR 136
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 26.8 bits (60), Expect = 6.1
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 107 DIEEEYLELRAANDIETRHLEEQFTE----RSKKQHQLHELEAEIEKL 150
D E+E +L+ + L E +E R + QL +L+A I++L
Sbjct: 551 DDEDELEQLQEELEARLESLSESVSEARERRMALRQQLEQLQARIQRL 598
>gnl|CDD|219176 pfam06785, UPF0242, Uncharacterized protein family (UPF0242).
Length = 401
Score = 26.8 bits (59), Expect = 6.5
Identities = 30/125 (24%), Positives = 50/125 (40%), Gaps = 15/125 (12%)
Query: 26 GFRQVQDKRYYEGLLQLKIRDLTNE---ITRLKRQIELSAKEHATFLLYDKRVKEMATEL 82
G R+ Q K LLQ KIR LT + + ++ IE KE L ++++ +L
Sbjct: 59 GRRERQLKTAAGQLLQTKIRKLTEQDEGLRNIRESIEERQKESDQLKLQNQKLVN---QL 115
Query: 83 TELQGKLSDYNLTMDKVNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHE 142
+G + T+ +EE L+ N L+ E ++K + E
Sbjct: 116 GHARGVF---------IKTKGRYQKLEELSRHLKEENQCLQIQLDALVQECNEKIEENQE 166
Query: 143 LEAEI 147
L E+
Sbjct: 167 LNREL 171
>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 = 26.8 bits (60), Expect = 6.7
Identities = 28/98 (28%), Positives = 46/98 (46%), Gaps = 16/98 (16%)
Query: 54 LKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYL 113
LK++ L AKE K E+ EL E + +L +++ Q EE L
Sbjct: 48 LKKEALLEAKEEVH-----KLRAELERELKERRNELQR----LERRLLQ------REETL 92
Query: 114 ELRAAN-DIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
+ + + D + +LE++ E S K+ L E E E+E+L
Sbjct: 93 DRKMESLDKKEENLEKKEKELSNKEKNLDEKEEELEEL 130
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 26.7 bits (60), Expect = 8.5
Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 17/76 (22%)
Query: 44 IRDLTNEITRLKRQI---------ELSAK--EHATFLLYDKRVKEMATELTELQGKL--- 89
+ +L NEI L+ + ELSAK ++ FL + ++ EL + +
Sbjct: 229 VVELNNEIRELRNKEEQEIERILKELSAKVAKNLDFLKFLNKI---FDELDFIFARARYA 285
Query: 90 SDYNLTMDKVNTQTNI 105
T N + I
Sbjct: 286 KALKATFPLFNDEGKI 301
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 26.2 bits (58), Expect = 9.0
Identities = 21/87 (24%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 71 YDKRVKEMATELTELQGKLSDYNLTMDKVNTQTNIADIEEEYLELRAAN-DIETRHLEEQ 129
++R+++M ++ Q +L +Y T ++ + + E + LE +A + E R LEE+
Sbjct: 10 LEERMEQMEEDMRRAQKELEEYEETALELEEKLKQEEEEAQLLEKKADELEEENRRLEEE 69
Query: 130 FTERSKKQHQLH----ELEAEIEKLDM 152
+++ +L E AE+ KL+
Sbjct: 70 AAASEEERERLEAEVDEATAEVAKLEE 96
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 26.6 bits (59), Expect = 9.2
Identities = 29/115 (25%), Positives = 52/115 (45%), Gaps = 12/115 (10%)
Query: 37 EGLLQLKIRDLTNEITRLKRQIELSAKEHATFLLYDKRVKEMATELTELQGKLSDY-NLT 95
L+ R L +I L+ +IE KE + ++E EL EL+ K +Y L+
Sbjct: 247 LESLEGSKRKLEEKIRELEERIEELKKE-------IEELEEKVKELKELKEKAEEYIKLS 299
Query: 96 MDKVNTQTNIADIEEEYLELRAANDIETRHLEEQFTERSKKQHQLHELEAEIEKL 150
+ +IE+ L E +EE+ E +K+ +L EL+ ++++L
Sbjct: 300 EFYEEYLDELREIEKRLSRLEE----EINGIEERIKELEEKEERLEELKKKLKEL 350
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
0.315 0.132 0.353
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,452,080
Number of extensions: 787300
Number of successful extensions: 1514
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1423
Number of HSP's successfully gapped: 258
Length of query: 168
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 78
Effective length of database: 6,945,742
Effective search space: 541767876
Effective search space used: 541767876
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: 41 (21.5 bits)
S2: 55 (24.9 bits)