RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy509
(158 letters)
>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein
VPS27; endosome maturation, intracellular trafficking;
1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1
Length = 73
Score = 106 bits (266), Expect = 3e-31
Identities = 34/66 (51%), Positives = 42/66 (63%)
Query: 20 ADTAPEWMDGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEKEVRVCE 79
+ T +W+D D C C FSL+ RKHHCR+CG VFCQ SS S LP GI + VRVC+
Sbjct: 2 SKTPADWIDSDACMICSKKFSLLNRKHHCRSCGGVFCQEHSSNSIPLPDLGIYEPVRVCD 61
Query: 80 DCHEKF 85
C E +
Sbjct: 62 SCFEDY 67
>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR
{Leishmania major}
Length = 84
Score = 105 bits (265), Expect = 6e-31
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 16 AMFSADTAPEWM---DGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIE 72
+M + W D C+ C F+ R+HHCR CG V C CS ++P GI
Sbjct: 5 SMGEKQSKGYWQEDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHRAAIPMRGIT 64
Query: 73 KEVRVCEDCHEKFTN 87
+ RVC+ C+ +
Sbjct: 65 EPERVCDACYLALRS 79
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate;
VHS, FYVE, zinc finger, superhelix, transferase; HET:
CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2
g.50.1.1
Length = 220
Score = 101 bits (253), Expect = 9e-28
Identities = 52/87 (59%), Positives = 62/87 (71%)
Query: 1 MKAEGFQFPVLKESDAMFSADTAPEWMDGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCS 60
+KA+G FP L+E+DAMF+ADTAP W DG CHRCR F+ RKHHCR CGQVFC C+
Sbjct: 133 LKAKGHTFPELREADAMFTADTAPNWADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCT 192
Query: 61 SKSTSLPKFGIEKEVRVCEDCHEKFTN 87
+K LPK+GIEKEVRVC+ C
Sbjct: 193 AKQCPLPKYGIEKEVRVCDGCFAALQR 219
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate;
signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Length = 226
Score = 100 bits (250), Expect = 3e-27
Identities = 55/86 (63%), Positives = 68/86 (79%)
Query: 1 MKAEGFQFPVLKESDAMFSADTAPEWMDGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCS 60
MK EG FP KESDAMF+A+ AP+W+D + CHRCR F ++ RKHHCRACGQ+FC CS
Sbjct: 136 MKVEGHVFPEFKESDAMFAAERAPDWVDAEECHRCRVQFGVMTRKHHCRACGQIFCGKCS 195
Query: 61 SKSTSLPKFGIEKEVRVCEDCHEKFT 86
SK +++PKFGIEKEVRVCE C+E+
Sbjct: 196 SKYSTIPKFGIEKEVRVCEPCYEQLN 221
>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics
consortium, SGC, lipid BIND protein, transport protein;
1.09A {Homo sapiens}
Length = 90
Score = 96.4 bits (240), Expect = 4e-27
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 5/90 (5%)
Query: 15 DAMFSADTAPEWM---DGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGI 71
+ + P W+ + C C+ F+ +R+HHCRACG+VFC +C ++ L
Sbjct: 3 EGLVLGQKQPTWVPDSEAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKCKLQYLE- 61
Query: 72 EKEVRVCEDCHEKFTNYYRSPTPGAAGSKS 101
KE RVC C+E + + +
Sbjct: 62 -KEARVCVVCYETISKAQAFERMMSPTGSN 90
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics,
structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB:
2yqm_A
Length = 82
Score = 94.0 bits (234), Expect = 3e-26
Identities = 30/77 (38%), Positives = 38/77 (49%), Gaps = 5/77 (6%)
Query: 20 ADTAPEWMDGD---TCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEKEVR 76
A W+ D C +C FS+ +RKHHCR CG +FC CSS +LP + K VR
Sbjct: 7 ALKGHAWLKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELALPSYP--KPVR 64
Query: 77 VCEDCHEKFTNYYRSPT 93
VC+ CH S
Sbjct: 65 VCDSCHTLLLQRCSSTA 81
>1wfk_A Zinc finger, FYVE domain containing 19; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, unknown function; NMR {Mus musculus} SCOP:
g.50.1.1
Length = 88
Score = 90.2 bits (224), Expect = 9e-25
Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 8/84 (9%)
Query: 32 CHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEKEVRVCEDCHEKFTNYYRS 91
C+ C F+L ++++ C+ CG+ FC C S S +P+ G + +VC+ CH T
Sbjct: 12 CYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGN-TQQKVCKQCHTILTR---- 66
Query: 92 PTPGAAGSKSEEMLPAEYLNSSLA 115
G++ + S+ P Y + +
Sbjct: 67 ---GSSDNASKWSPPQNYKSGPSS 87
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B;
phosphoinositide binding, zinc binding, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 84
Score = 88.0 bits (218), Expect = 6e-24
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 9/77 (11%)
Query: 19 SADTAPEWM---DGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGI---- 71
+ + + C C TFS+++++ C CG FC C S G
Sbjct: 1 GSSGSSGRYPTNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSFKVPKSSMGATAPE 60
Query: 72 --EKEVRVCEDCHEKFT 86
+ V VC C++ +
Sbjct: 61 AQRETVFVCASCNQTLS 77
>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol
3-phosphate binding, membrane protein; HET: ITP; 2.20A
{Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A*
1hyj_A
Length = 125
Score = 86.6 bits (214), Expect = 6e-23
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 17 MFSADTAPEWMDGD---TCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEK 73
+ +W + + C C FS+ R+HHCR CG +FC CS+K+ P K
Sbjct: 54 KHTQALNRKWAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKNALTPSSK--K 111
Query: 74 EVRVCEDCHEKFT 86
VRVC+ C
Sbjct: 112 PVRVCDACFNDLQ 124
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 68.1 bits (166), Expect = 2e-14
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 4/78 (5%)
Query: 12 KESDAMFSADTAPEWM---DGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPK 68
+E + + P + C C FSL R+HHC ACG++ C+ CS L
Sbjct: 355 RERLGVSLGERPPTLVPVTHVMMCMNCGCDFSLTLRRHHCHACGKIVCRNCSRNKYPLKY 414
Query: 69 FGIEKEVRVCEDCHEKFT 86
++ +VC+ C +
Sbjct: 415 LK-DRMAKVCDGCFGELK 431
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module,
phosphoinositide binding, caspase regulation, metal
binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1
g.50.1.1
Length = 120
Score = 61.3 bits (148), Expect = 5e-13
Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 9/79 (11%)
Query: 14 SDAMFSADTAPEWMDGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEK 73
S+ +S+ +P +C C F+ RK C C + FC CSS+ +
Sbjct: 5 SNPGYSSFPSP-TGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQ--------VGN 55
Query: 74 EVRVCEDCHEKFTNYYRSP 92
R+C C ++
Sbjct: 56 GPRLCLLCQRFRATAFQRE 74
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 46.8 bits (111), Expect = 6e-07
Identities = 6/41 (14%), Positives = 13/41 (31%), Gaps = 1/41 (2%)
Query: 31 TCHRCRTTF-SLVQRKHHCRACGQVFCQLCSSKSTSLPKFG 70
+C C+ + + C C + C + + G
Sbjct: 359 SCKACQMLLRGTFYQGYRCYRCRAPAHKECLGRVPPCGRHG 399
>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB
protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: g.50.1.1
Length = 134
Score = 39.9 bits (92), Expect = 5e-05
Identities = 13/79 (16%), Positives = 26/79 (32%), Gaps = 5/79 (6%)
Query: 7 QFPVLKESDAMFSADTAPEWMDGDTCHRCRTTFS-LVQRKHHCRACGQVFCQLCSSKSTS 65
Q + + D + + + C C L C C + C C ++++
Sbjct: 33 QERIGRLVDRLETMRKNVAGDGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSN 92
Query: 66 LPKFGIEKEVRVCEDCHEK 84
V +C+ C E+
Sbjct: 93 ----NRPHPVWLCKICLEQ 107
>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB,
RAB27B, effector, SLP homology domain, acetylation,
lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}
Length = 153
Score = 39.6 bits (91), Expect = 1e-04
Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 8/69 (11%)
Query: 24 PEWMDGDTCHRCRTTFS-LVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEKEVRVCEDCH 82
++ C RC + L+ + C C C+ CS ++ +C+ CH
Sbjct: 63 TAHLNETHCARCLQPYRLLLNSRRQCLECSLFVCKSCSHAHPE-------EQGWLCDPCH 115
Query: 83 EKFTNYYRS 91
S
Sbjct: 116 LARVVKIGS 124
>2d3g_P Ubiquitin interacting motif from hepatocyte growth factor-regulated
tyrosine kinase...; protein-protein complex, UIM and
ubiquitin; 1.70A {Bos taurus}
Length = 26
Score = 31.1 bits (69), Expect = 0.011
Identities = 18/19 (94%), Positives = 19/19 (100%)
Query: 134 LKEEEELQLALALSQSEAE 152
L+EEEELQLALALSQSEAE
Sbjct: 1 LQEEEELQLALALSQSEAE 19
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 32.7 bits (74), Expect = 0.047
Identities = 13/45 (28%), Positives = 14/45 (31%), Gaps = 8/45 (17%)
Query: 31 TCHRC----RTTFSLVQRKHHCRACGQVFC----QLCSSKSTSLP 67
+C C R TF R H CRA C C P
Sbjct: 531 SCKACQMLLRGTFYQGYRCHRCRASAHKECLGRVPPCGRHGQDFP 575
>1mo9_A ORF3; nucleotide binding motifs, nucleotide binding domain, oxidor;
HET: FAD KPC; 1.65A {Xanthobacter autotrophicus} SCOP:
c.3.1.5 c.3.1.5 d.87.1.1 PDB: 1mok_A* 2c3c_A* 2c3d_A*
3q6j_A*
Length = 523
Score = 29.6 bits (67), Expect = 0.47
Identities = 5/21 (23%), Positives = 8/21 (38%), Gaps = 4/21 (19%)
Query: 117 QPQVPPPKATGGKTEEELKEE 137
+V + G EEE +
Sbjct: 394 HYEV----SFLGMGEEEARAA 410
>1yx4_A 26S proteasome non-ATPase regulatory subunit 4; polyubiquitin, UIM,
hydrolase; NMR {Homo sapiens} PDB: 1yx5_A 1yx6_A 2kde_A
2kdf_A
Length = 132
Score = 28.8 bits (63), Expect = 0.48
Identities = 13/65 (20%), Positives = 24/65 (36%)
Query: 90 RSPTPGAAGSKSEEMLPAEYLNSSLALQPQVPPPKATGGKTEEELKEEEELQLALALSQS 149
R+ AA + + ++ L + TG + EEE++ A+ +S
Sbjct: 63 RAAAASAAEAGIATTGTEDSDDALLKMTISQQEFGRTGLPDLSSMTEEEQIAYAMQMSLQ 122
Query: 150 EAESN 154
AE
Sbjct: 123 GAEFG 127
>3cng_A Nudix hydrolase; structural genomics, APC7497, PSI-2, protei
structure initiative; 2.00A {Nitrosomonas europaea atcc
19718}
Length = 189
Score = 28.9 bits (65), Expect = 0.58
Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 3/43 (6%)
Query: 55 FCQLCSSKSTSLPKFGIEKEVRVCEDCHEKFTNYYRSPTPGAA 97
FC C + G +C CH T +Y++P
Sbjct: 5 FCSQCGGEVILRIPEGDTLPRYICPKCH---TIHYQNPKVIVG 44
>2a8x_A Dihydrolipoyl dehydrogenase, E3 component of alpha; lipoamide
dehydrogenase, pyruvate dehydrogenase, alpha keto acid
dehydrogenase; HET: FAD; 2.40A {Mycobacterium
tuberculosis} PDB: 3ii4_A*
Length = 464
Score = 29.0 bits (66), Expect = 0.67
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 4/21 (19%)
Query: 117 QPQVPPPKATGGKTEEELKEE 137
QP V A+ G TE++ + E
Sbjct: 352 QPNV----ASFGLTEQQARNE 368
>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger
esential for function;...; stable, non-interacting
alpha-helices; NMR {Saccharomyces cerevisiae} SCOP:
j.105.1.1 PDB: 1q0w_A
Length = 81
Score = 27.5 bits (61), Expect = 0.72
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 111 NSSLALQPQVPPPKATGGKTEEELKEEEELQLALALSQSEAESNKP 156
SS + P V + EE +E+ +L+ A+ S EAE K
Sbjct: 30 ASSEPIVPVVESKNEVKRQEIEE-EEDPDLKAAIQESLREAEEAKL 74
>2csz_A Synaptotagmin-like protein 4; exophilin 2, granuphilin, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 76
Score = 27.2 bits (60), Expect = 0.74
Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 31 TCHRCRTTFSLV-QRKHHCRACGQVFCQLCSSKSTS 65
TC RC+ + + + + CR C + C+ C + ++
Sbjct: 27 TCARCQESLGRLSPKTNTCRGCNHLVCRDCRIQESN 62
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 28.7 bits (63), Expect = 0.93
Identities = 20/160 (12%), Positives = 40/160 (25%), Gaps = 48/160 (30%)
Query: 33 HRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEKEVRVCED------CHEKFT 86
H F + ++ + VF F + + +D E+
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVF----------EDAFVDNFDCKDVQDMPKSILSKEEID 52
Query: 87 NYYRSPTP--------------GAAGSKS--EEMLPAEY--LNSSLALQPQVPPPKATGG 128
+ S + EE+L Y L S + + + P
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 129 KTEEEL--------------KEEEELQLALALSQSEAESN 154
+ + + + L+L AL + N
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Score = 27.1 bits (59), Expect = 3.2
Identities = 17/97 (17%), Positives = 31/97 (31%), Gaps = 39/97 (40%)
Query: 16 AMFSADTA-PE------WMDGDT---------CHRCRTTFSLVQRKHHCRACGQVFCQLC 59
++F P W D H+ +SLV+++
Sbjct: 379 SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK----YSLVEKQPK------------ 422
Query: 60 SSKSTSLPKFGIEKEVRV-CED---CHEKFTNYYRSP 92
+ S+P I E++V E+ H ++Y P
Sbjct: 423 -ESTISIP--SIYLELKVKLENEYALHRSIVDHYNIP 456
>2lcq_A Putative toxin VAPC6; PIN domain, Zn ribbon domain, ribosome
biogenesis, metal BIN protein; NMR {Pyrococcus
horikoshii}
Length = 165
Score = 28.0 bits (62), Expect = 1.2
Identities = 7/22 (31%), Positives = 8/22 (36%)
Query: 32 CHRCRTTFSLVQRKHHCRACGQ 53
C C FS + C CG
Sbjct: 135 CIGCGRKFSTLPPGGVCPDCGS 156
>2a20_A Regulating synaptic membrane exocytosis protein 2; zinc-finger
domain, metal binding protein; NMR {Rattus norvegicus}
PDB: 2cjs_C
Length = 62
Score = 26.3 bits (57), Expect = 1.2
Identities = 15/57 (26%), Positives = 21/57 (36%), Gaps = 4/57 (7%)
Query: 28 DGDTCHRCRTTFSLVQRKHHCRACGQVFCQLCSSKSTSLPKFGIEKEVRVCEDCHEK 84
D TC C T H+C C FC C + + K + VC C ++
Sbjct: 8 DAPTCGICHKTKFADGCGHNCSYCQTKFCARCGGRVSLRS----NKVMWVCNLCRKQ 60
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 27.7 bits (61), Expect = 1.2
Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 5/48 (10%)
Query: 12 KESDAMFSADTAPEWMDGDTCHRCRT-TFSLVQRKHH----CRACGQV 54
+ES + P TC C+ +V+R C CG V
Sbjct: 4 RESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLV 51
Score = 26.2 bits (57), Expect = 4.0
Identities = 6/32 (18%), Positives = 10/32 (31%), Gaps = 7/32 (21%)
Query: 53 QVFCQLCSSKSTSLPKFGIEKEVR---VCEDC 81
+ C C + +E+ VC C
Sbjct: 21 VLTCPECKVYPPKI----VERFSEGDVVCALC 48
>1ebd_A E3BD, dihydrolipoamide dehydrogenase; redox-active center,
glycolysis, oxidoreductase; HET: FAD; 2.60A {Geobacillus
stearothermophilus} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 455
Score = 27.9 bits (63), Expect = 1.4
Identities = 5/13 (38%), Positives = 9/13 (69%)
Query: 125 ATGGKTEEELKEE 137
A+ G E++ K+E
Sbjct: 353 ASVGYFEQQAKDE 365
>1xdi_A RV3303C-LPDA; reductase, FAD, NAD, NADP, unkno function; HET: FAD;
2.81A {Mycobacterium tuberculosis} SCOP: c.3.1.5
d.87.1.1
Length = 499
Score = 27.9 bits (63), Expect = 1.5
Identities = 3/21 (14%), Positives = 8/21 (38%), Gaps = 4/21 (19%)
Query: 117 QPQVPPPKATGGKTEEELKEE 137
+P++ A G + +
Sbjct: 359 RPEI----AAVGVPQSVIDAG 375
>1onf_A GR, grase, glutathione reductase; oxidoreductase; HET: FAD; 2.60A
{Plasmodium falciparum} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 500
Score = 28.0 bits (63), Expect = 1.6
Identities = 6/17 (35%), Positives = 8/17 (47%)
Query: 121 PPPKATGGKTEEELKEE 137
PP T G +EE +
Sbjct: 388 HPPIGTIGLSEEAAIQI 404
>1ojt_A Surface protein; redox-active center, glycolysis, oxidoreductase,
NAD, flavop FAD, P64K; HET: FAD; 2.75A {Neisseria
meningitidis} SCOP: c.3.1.5 c.3.1.5 d.87.1.1 PDB:
1bhy_A*
Length = 482
Score = 27.9 bits (63), Expect = 1.6
Identities = 5/13 (38%), Positives = 6/13 (46%)
Query: 125 ATGGKTEEELKEE 137
A G+TE K
Sbjct: 369 AWVGETELSAKAS 381
>1lvl_A Dihydrolipoamide dehydrogenase; oxidoreductase; HET: FAD NAD; 2.45A
{Pseudomonas putida} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 458
Score = 27.9 bits (63), Expect = 1.7
Identities = 4/13 (30%), Positives = 7/13 (53%)
Query: 125 ATGGKTEEELKEE 137
GKT E+ ++
Sbjct: 350 VVVGKTPEQASQQ 362
>2eq6_A Pyruvate dehydrogenase complex, dihydrolipoamide dehydrogenase E3
component; oxidoreductase, homodimer, structural
genomics, NPPSFA; HET: FAD; 1.60A {Thermus thermophilus}
PDB: 2eq8_A* 2eq9_A*
Length = 464
Score = 27.9 bits (63), Expect = 1.7
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 125 ATGGKTEEELKEE 137
A G TEEE K
Sbjct: 353 AGVGLTEEEAKRA 365
>1zmd_A Dihydrolipoyl dehydrogenase; lipoamide dehydrogenase, pyruvate
dehydrogenase, alpha- ketoglutarate dehydrogenase; HET:
FAD NAI; 2.08A {Homo sapiens} PDB: 1zmc_A* 2f5z_A*
1zy8_A* 3rnm_A*
Length = 474
Score = 27.9 bits (63), Expect = 1.8
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 125 ATGGKTEEELKEE 137
A GK+EE+LKEE
Sbjct: 365 AWVGKSEEQLKEE 377
>2qae_A Lipoamide, dihydrolipoyl dehydrogenase; FAD-cystine-oxidoreductase,
homodimer; HET: FAD; 1.90A {Trypanosoma cruzi}
Length = 468
Score = 27.5 bits (62), Expect = 1.9
Identities = 8/13 (61%), Positives = 12/13 (92%)
Query: 125 ATGGKTEEELKEE 137
A+ GK+E+ELK+E
Sbjct: 360 ASVGKSEDELKKE 372
>3lad_A Dihydrolipoamide dehydrogenase; oxidoreductase; HET: FAD; 2.20A
{Azotobacter vinelandii} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
PDB: 1lpf_A*
Length = 476
Score = 27.5 bits (62), Expect = 2.1
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 125 ATGGKTEEELKEE 137
A GKTE+ LK E
Sbjct: 363 AGVGKTEQALKAE 375
>1dxl_A Dihydrolipoamide dehydrogenase; oxidoreductase, multienzyme complex
protein, pyruvate dehydrogenase complex, glycine
decarboxylase complex; HET: FAD; 3.15A {Pisum sativum}
SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 470
Score = 27.5 bits (62), Expect = 2.1
Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 4/20 (20%)
Query: 118 PQVPPPKATGGKTEEELKEE 137
P+V A+ GKTEE++KE
Sbjct: 359 PEV----ASVGKTEEQVKET 374
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 2.1
Identities = 5/14 (35%), Positives = 10/14 (71%)
Query: 11 LKESDAMFSADTAP 24
L+ S +++ D+AP
Sbjct: 25 LQASLKLYADDSAP 38
>3urh_A Dihydrolipoyl dehydrogenase; PSI-biology, structural genomics,
protein structure initiati YORK structural genomics
research consortium; HET: FAD; 1.90A {Sinorhizobium
meliloti}
Length = 491
Score = 27.5 bits (62), Expect = 2.2
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 125 ATGGKTEEELKEE 137
A+ GKTEEELK
Sbjct: 383 ASVGKTEEELKAA 395
>1v59_A Dihydrolipoamide dehydrogenase; 2-oxoacid dehydroganese complex,
pyruvate dehydrogenase complex; HET: FAD NAD; 2.20A
{Saccharomyces cerevisiae} SCOP: c.3.1.5 c.3.1.5
d.87.1.1 PDB: 1jeh_A*
Length = 478
Score = 27.5 bits (62), Expect = 2.2
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 125 ATGGKTEEELKEE 137
A GKTEE+LKE
Sbjct: 370 AWVGKTEEQLKEA 382
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His
protein, LIM and senescent cell antigen-like domains 1,
structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 25.9 bits (57), Expect = 2.5
Identities = 9/58 (15%), Positives = 18/58 (31%), Gaps = 8/58 (13%)
Query: 32 CHRCRTTFSLVQRKHHCRACGQVFCQ---LCSSKSTSLPKFGIEKEVRV-CEDCHEKF 85
C +C + + + C++ L E + + C CH+K
Sbjct: 18 CQKCHA----IIDEQPLIFKNDPYHPDHFNCANCGKELTADARELKGELYCLPCHDKM 71
>2yqu_A 2-oxoglutarate dehydrogenase E3 component; lipoamide dehydrogenase,
2-oxoglutarate dehydrogenase comple pyruvate
dehydrogenase complex; HET: FAD; 1.70A {Thermus
thermophilus} PDB: 2eq7_A*
Length = 455
Score = 27.1 bits (61), Expect = 2.6
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 4/20 (20%)
Query: 118 PQVPPPKATGGKTEEELKEE 137
P++ A G TEEELK +
Sbjct: 344 PEI----AAVGYTEEELKAQ 359
>3avr_A Lysine-specific demethylase 6A; cupin superfamily,
TRI/dimethyllysine demethylase, oxidoredu structural
protein complex; HET: M3L OGA EDO; 1.80A {Homo sapiens}
PDB: 3avs_A*
Length = 531
Score = 27.1 bits (59), Expect = 2.7
Identities = 11/66 (16%), Positives = 18/66 (27%), Gaps = 3/66 (4%)
Query: 1 MKAEGFQFPVLKESDAMFSADTAPEWMDGDTCHRCRTT---FSLVQRKHHCRACGQVFCQ 57
+K L + + C C V + + R V CQ
Sbjct: 430 LKQCQTLREALIAAGKEIIWHGRTKEEPAHYCSICEVEVFDLLFVTNESNSRKTYIVHCQ 489
Query: 58 LCSSKS 63
C+ K+
Sbjct: 490 DCARKT 495
>3l8k_A Dihydrolipoyl dehydrogenase; redox-active center, structural
genomics, PSI-2, protein structure initiative; HET: ADP;
2.50A {Sulfolobus solfataricus}
Length = 466
Score = 27.1 bits (61), Expect = 2.8
Identities = 1/13 (7%), Positives = 5/13 (38%)
Query: 125 ATGGKTEEELKEE 137
+ G + ++
Sbjct: 356 SYVGILPSKARKM 368
>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal
binding site, structura genomics, PSI, protein structure
initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82
Length = 105
Score = 26.0 bits (57), Expect = 3.1
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 9/48 (18%)
Query: 36 RTTFSLVQRKHHCRACGQVF---------CQLCSSKSTSLPKFGIEKE 74
R L+ + CR CG VF C C S+ P+F +E++
Sbjct: 58 REGMVLLIKPAQCRKCGFVFKAEINIPSRCPKCKSEWIEEPRFKLERK 105
>1zk7_A HGII, reductase, mercuric reductase; mercuric ION reductase,
oxidoreductase; HET: FAD; 1.60A {Pseudomonas aeruginosa}
PDB: 1zx9_A*
Length = 467
Score = 26.7 bits (60), Expect = 3.8
Identities = 8/20 (40%), Positives = 10/20 (50%), Gaps = 4/20 (20%)
Query: 118 PQVPPPKATGGKTEEELKEE 137
PQV AT G +E E +
Sbjct: 351 PQV----ATVGYSEAEAHHD 366
>2cqy_A Propionyl-COA carboxylase alpha chain, mitochondrial; PCCA, B
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 108
Score = 25.2 bits (56), Expect = 6.1
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 124 KAT---GGKTEEELKEEEELQLALALSQSEAES 153
KA+ GGK ++EE + LS EA S
Sbjct: 51 KASAGGGGKGMRIAWDDEETRDGFRLSSQEAAS 83
>2ida_A Hypothetical protein; zinc binding protein, structural genomics,
PSI-2, protein structure initiative; NMR
{Rhodopseudomonas palustris} SCOP: g.44.1.5
Length = 102
Score = 25.3 bits (55), Expect = 6.4
Identities = 9/29 (31%), Positives = 9/29 (31%)
Query: 28 DGDTCHRCRTTFSLVQRKHHCRACGQVFC 56
C C S CR CG V C
Sbjct: 17 SALGCEECLKIGSPWVHLRICRTCGHVGC 45
>3ic9_A Dihydrolipoamide dehydrogenase; APC62701, colwellia psychrer 34H,
structural genomics, PSI-2; HET: FAD; 2.15A {Colwellia
psychrerythraea}
Length = 492
Score = 26.0 bits (58), Expect = 6.9
Identities = 5/22 (22%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 117 QPQVPPPKATGGKTEEELKEEE 138
+PQV A+ G + ++++
Sbjct: 356 EPQV----ASVGLSLRQIEDLY 373
>3dgz_A Thioredoxin reductase 2; oxidoreductase, rossmann, flavoprotein,
FAD, mitochondrion, redox-active center, selenium,
selenocysteine, transit PEPT; HET: FAD NA7; 2.25A {Mus
musculus} PDB: 1zkq_A* 1zdl_A*
Length = 488
Score = 26.0 bits (58), Expect = 7.0
Identities = 5/17 (29%), Positives = 6/17 (35%)
Query: 121 PPPKATGGKTEEELKEE 137
P G +EEE
Sbjct: 369 PLEYGCVGLSEEEAVAL 385
>3u5c_B RP10A, 40S ribosomal protein S1-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_B
Length = 255
Score = 24.7 bits (54), Expect = 7.4
Identities = 1/26 (3%), Positives = 2/26 (7%)
Query: 32 CHRCRTTFSLVQRKHHCRACGQVFCQ 57
T +
Sbjct: 40 NRNVGKTLVNKSTGLKSASDALKGRV 65
>3ouz_A Biotin carboxylase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta fold,
cytosol, LIG; HET: MSE ADP SRT TLA; 1.90A {Campylobacter
jejuni subsp} PDB: 3ouu_A*
Length = 446
Score = 25.9 bits (58), Expect = 7.4
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 124 KAT---GGKTEEELKEEEELQLALALSQSEAES 153
KA GG+ ++ E++L+ A ++SEA +
Sbjct: 162 KAAAGGGGRGMRVVENEKDLEKAYWSAESEAMT 194
>2w70_A Biotin carboxylase; ligase, ATP-binding, fatty acid biosynthesis,
nucleotide-BIN lipid synthesis, ATP-grAsp domain,
fragment screening; HET: L22; 1.77A {Escherichia coli}
PDB: 1bnc_A 2j9g_A* 2v58_A* 2v59_A* 2v5a_A* 2vr1_A*
2w6m_A* 1dv1_A* 2w6o_A* 2w6n_A* 2w6q_A* 2w6z_A* 2w6p_A*
2w71_A* 3jzf_A* 3jzi_A* 3rv3_A* 3rup_A* 1dv2_A* 3rv4_A*
...
Length = 449
Score = 25.9 bits (58), Expect = 7.5
Identities = 8/33 (24%), Positives = 22/33 (66%), Gaps = 3/33 (9%)
Query: 124 KAT---GGKTEEELKEEEELQLALALSQSEAES 153
KA+ GG+ ++ + EL +++++++EA++
Sbjct: 159 KASGGGGGRGMRVVRGDAELAQSISMTRAEAKA 191
>3qfa_A Thioredoxin reductase 1, cytoplasmic; protein-protein complex,
rossmann fold, HO pyridine nucleotide disulfide
oxidoreductase, electron TRAN oxidoreductase; HET: FAD;
2.20A {Homo sapiens} PDB: 3qfb_A* 2j3n_A* 2zzc_A*
2zzb_A* 2zz0_A* 2cfy_A* 1h6v_A* 3ean_A* 3eao_A*
Length = 519
Score = 25.6 bits (57), Expect = 7.6
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 121 PPPKATGGKTEEELKEE 137
P G +EE+ E+
Sbjct: 397 PLEYGACGLSEEKAVEK 413
>1qxf_A GR2, 30S ribosomal protein S27E; structural genomics, beta sheet,
PSI, protein structure initiative; NMR {Archaeoglobus
fulgidus} SCOP: g.41.8.4
Length = 66
Score = 24.3 bits (53), Expect = 7.8
Identities = 5/26 (19%), Positives = 8/26 (30%)
Query: 32 CHRCRTTFSLVQRKHHCRACGQVFCQ 57
C + F C CG+ +
Sbjct: 13 CEHEQVIFDHPSTIVKCIICGRTVAE 38
>2xzm_6 RPS27E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_6
Length = 81
Score = 24.3 bits (53), Expect = 8.1
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 3/29 (10%)
Query: 32 CHRC---RTTFSLVQRKHHCRACGQVFCQ 57
C +C + FS Q C C + C+
Sbjct: 35 CAQCQNIQMIFSNAQSTIICEKCSAILCK 63
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 25.1 bits (55), Expect = 8.3
Identities = 10/63 (15%), Positives = 18/63 (28%), Gaps = 8/63 (12%)
Query: 30 DTCHRCRTTFSLVQRKHHCRACGQVF------CQLCSSKSTSLPKFGIEKEVRVCEDCHE 83
C C + R +V+ C C ++ + VCE
Sbjct: 67 GLCASCDKRIRAYEMTM--RVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIY 124
Query: 84 KFT 86
++T
Sbjct: 125 EWT 127
>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4),
metal binding protein; NMR {Homo sapiens} SCOP:
g.44.1.1
Length = 65
Score = 24.1 bits (52), Expect = 8.6
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 27 MDGDTCHRCRTTFSLV-QRKHHCRACGQVFCQLC 59
MD C RC+TT K CG C+ C
Sbjct: 1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESC 34
>3iz6_X 40S ribosomal protein S27 (S27E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Length = 86
Score = 24.4 bits (53), Expect = 8.6
Identities = 11/29 (37%), Positives = 11/29 (37%), Gaps = 3/29 (10%)
Query: 32 CHRC---RTTFSLVQRKHHCRACGQVFCQ 57
C C T FS Q C C V CQ
Sbjct: 39 CQGCFNITTVFSHSQTVVVCPGCQTVLCQ 67
>1lqa_A TAS protein; TIM barrel, structure 2 function project, S2F,
structural GE oxidoreductase; HET: NDP; 1.60A
{Escherichia coli} SCOP: c.1.7.1
Length = 346
Score = 25.6 bits (57), Expect = 8.9
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 120 VPPPKATGGKTEE 132
VPP T G TE
Sbjct: 55 VPPRPETQGLTET 67
>2qf7_A Pyruvate carboxylase protein; multi-domain, multi-functional,
biotin-dependent, ligase; HET: KCX COA AGS; 2.00A
{Rhizobium etli} PDB: 3tw6_A* 3tw7_A*
Length = 1165
Score = 25.7 bits (57), Expect = 9.0
Identities = 8/33 (24%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 124 KAT---GGKTEEELKEEEELQLALALSQSEAES 153
KA+ GG+ ++ E +L + ++ EA +
Sbjct: 177 KASWGGGGRGMRVIRSEADLAKEVTEAKREAMA 209
>3dgh_A TRXR-1, thioredoxin reductase 1, mitochondrial; oxidoreductase,
rossmann, flavoprotein, alternative initiati
mitochondrion, NADP; HET: FAD; 1.75A {Drosophila
melanogaster} PDB: 2nvk_X* 3dh9_A*
Length = 483
Score = 25.6 bits (57), Expect = 9.3
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 121 PPPKATGGKTEEELKEE 137
P A G +EE+ ++
Sbjct: 369 PLEYACVGLSEEDAVKQ 385
>2x8g_A Thioredoxin glutathione reductase; redox-active center,
detoxification pathway, oxidoreductase, flavoprotein;
HET: FAD PG4; 1.90A {Schistosoma mansoni} PDB: 2x8c_A*
2x8h_A* 2x99_A* 3h4k_A* 2v6o_A*
Length = 598
Score = 25.4 bits (56), Expect = 9.7
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 121 PPPKATGGKTEEELKEE 137
P G +EE+ E+
Sbjct: 476 PLEYGACGLSEEDAIEK 492
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.314 0.128 0.388
Gapped
Lambda K H
0.267 0.0548 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,370,118
Number of extensions: 128120
Number of successful extensions: 543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 521
Number of HSP's successfully gapped: 139
Length of query: 158
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 72
Effective length of database: 4,300,587
Effective search space: 309642264
Effective search space used: 309642264
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.6 bits)