RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15639
(135 letters)
>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 = 41.5 bits (96), Expect = 1e-05
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 6/59 (10%)
Query: 12 NCRVCLKSFKP-DDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQ 69
+C CL+ ++ + R C EC VC+ C+ +E W C C +
Sbjct: 70 HCARCLQPYRLLLNSRRQCLECSLFVCKSCSHAHP-----EEQGWLCDPCHLARVVKIG 123
>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 = 40.3 bits (93), Expect = 3e-05
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 3/59 (5%)
Query: 12 NCRVCLKSFKPD-DYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQ 69
C +C + S VC +C + VC C + N+ W C IC + + +
Sbjct: 57 RCILCGEQLGMLGSASVVCEDCKKNVCTKCG--VETSNNRPHPVWLCKICLEQREVWKR 113
>2csz_A Synaptotagmin-like protein 4; exophilin 2, granuphilin, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 76
Score = 36.1 bits (83), Expect = 4e-04
Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 10/66 (15%)
Query: 2 KSDKPAARLGNCRVCLKSFKP----DDYSRVCYECHQKVCEDCASYSKLDENQDENTWRC 57
K K ++ + R C + + + C C+ VC DC TWRC
Sbjct: 14 KGAKRGSQHYSDRTCARCQESLGRLSPKTNTCRGCNHLVCRDCRIQES------NGTWRC 67
Query: 58 SICRRK 63
+C
Sbjct: 68 KVCSGP 73
>2a20_A Regulating synaptic membrane exocytosis protein 2; zinc-finger
domain, metal binding protein; NMR {Rattus norvegicus}
PDB: 2cjs_C
Length = 62
Score = 34.7 bits (79), Expect = 0.001
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 13 CRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQ 65
C +C K+ D C C K C C L N + W C++CR++ +
Sbjct: 12 CGICHKTKFADGCGHNCSYCQTKFCARCGGRVSLRSN--KVMWVCNLCRKQQE 62
>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative
splicing, HOST-virus interaction, UBL conjugation
pathway, zinc-finger, polymorphism; HET: FLC; 2.20A
{Homo sapiens} PDB: 2vjf_B*
Length = 63
Score = 29.8 bits (67), Expect = 0.051
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 9/58 (15%)
Query: 10 LGNCRVCLKSFKPDDYSRVCYEC-HQKVCEDCASYSKLDENQDENTWRCSICRRKLQS 66
L C +C K +P D + + H C CA + C IC++++Q
Sbjct: 7 LKPCSLCEK--RPRDGNIIHGRTGHLVTCFHCA------RRLKKAGASCPICKKEIQL 56
>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 = 31.5 bits (71), Expect = 0.070
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 1/64 (1%)
Query: 5 KPAARLGNCRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWR-CSICRRK 63
P + C C F C+ C + VC +C+ + + + C C +
Sbjct: 370 VPVTHVMMCMNCGCDFSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKDRMAKVCDGCFGE 429
Query: 64 LQSR 67
L+ R
Sbjct: 430 LKKR 433
>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 = 30.3 bits (67), Expect = 0.12
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 16/37 (43%)
Query: 48 ENQDENTWRCSICRRKLQSR-------AQPVLSQNST 77
E Q ++ +KLQ+ + P L+ +T
Sbjct: 18 EKQ-------AL--KKLQASLKLYADDSAPALAIKAT 45
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 29.3 bits (66), Expect = 0.16
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 13 CRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRR 62
C +C++SF + C +C C KL + N RC C +
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCL--EKLLASS-INGVRCPFCSK 64
>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene,
phosphorylation, alternative splicing, HOST-virus
interaction, UBL conjugation pathway, zinc-finger,
polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB:
2vjf_A* 2hdp_A
Length = 64
Score = 28.2 bits (63), Expect = 0.23
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 9/65 (13%)
Query: 3 SDKPAARLGNCRVCLKSFKPDDYSRVCYEC-HQKVCEDCASYSKLDENQDENTWRCSICR 61
S P + C +C +P + V + H C CA + + C +CR
Sbjct: 1 SSLPLNAIEPCVICQG--RPKNGCIVHGKTGHLMACFTCA------KKLKKRNKPCPVCR 52
Query: 62 RKLQS 66
+ +Q
Sbjct: 53 QPIQM 57
>1we9_A PHD finger family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 64
Score = 27.5 bits (61), Expect = 0.43
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 13 CRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRK 63
C C +S+ D++ C C C + + ++C C K
Sbjct: 9 CGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQ-YKCPSCSNK 58
>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 = 28.5 bits (63), Expect = 0.51
Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 13/49 (26%)
Query: 13 CRVCLKSFKPD---DYSRVCYECHQKVCEDCASYSKLDENQ-DENT-WR 56
C C K + P +S VC C L + D + WR
Sbjct: 24 CPEC-KVYPPKIVERFSE-----GDVVCALCGLV--LSDKLVDTRSEWR 64
Score = 25.0 bits (54), Expect = 8.4
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 34 QKVCEDCASYS-KLDENQDENTWRCSIC 60
C +C Y K+ E E C++C
Sbjct: 21 VLTCPECKVYPPKIVERFSEGDVVCALC 48
>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: g.50.1.2
Length = 88
Score = 27.0 bits (59), Expect = 1.0
Identities = 17/70 (24%), Positives = 26/70 (37%), Gaps = 3/70 (4%)
Query: 12 NCRVCLKSFKPDDYSRV-CYECHQKVCEDCAS--YSKLDENQDENTWRCSICRRKLQSRA 68
C VC + V C ECH +DC + + N W C+ C R+++ A
Sbjct: 18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMA 77
Query: 69 QPVLSQNSTD 78
Q +
Sbjct: 78 QKNQKSGPSS 87
>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase
complex, ring zinc-finger, UBL conjugation pathway;
2.10A {Homo sapiens} PDB: 2yhn_A
Length = 79
Score = 26.7 bits (59), Expect = 1.0
Identities = 17/75 (22%), Positives = 31/75 (41%), Gaps = 17/75 (22%)
Query: 13 CRVCLKSFKPDDYSRVCYEC-HQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQPV 71
C VC + + + C H CE CA+ + C +CR +++
Sbjct: 21 CMVCCEE----EINSTFCPCGHTVCCESCAAQLQ----------SCPVCRSRVEHVQHVY 66
Query: 72 LSQNSTDSLLDVPVL 86
L ++ SLL++ V+
Sbjct: 67 LPTHT--SLLNLTVI 79
>2l6c_A Thioredoxin; oxidoreductase; NMR {Desulfovibrio vulgaris} PDB:
2l6d_A
Length = 110
Score = 26.9 bits (60), Expect = 1.3
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 84 PVLEALQRRHSDVKIGSANSGAHPA 108
VL+ R V I S +S A P
Sbjct: 39 KVLDKFGARAPQVAISSVDSEARPE 63
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 26.2 bits (57), Expect = 1.4
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 5/51 (9%)
Query: 13 CRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRK 63
C +C++ + DD + C ++C C + DEN C CR+
Sbjct: 14 CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENG-----LCPACRKP 59
>2ppt_A Thioredoxin-2; thiredoxin, zinc finger, oxidoreductase; 1.92A
{Rhodobacter capsulatus}
Length = 155
Score = 27.1 bits (60), Expect = 1.6
Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 36 VCEDCASYSKLDENQDENTWRCSICRRKLQSRAQPVLSQNSTDSLL--DVPVL 86
C C +K+ ++ +C IC L + + D+P+L
Sbjct: 16 TCLACGQANKVPSDRLAAGPKCGICGAGLITGKVAGIDPAILARAERDDLPLL 68
>1z60_A TFIIH basal transcription factor complex P44 subunit; basic
transcription factor, zinc binding protein, ring
finger; NMR {Homo sapiens} SCOP: g.49.1.2
Length = 59
Score = 25.6 bits (56), Expect = 1.6
Identities = 9/29 (31%), Positives = 10/29 (34%), Gaps = 1/29 (3%)
Query: 12 NCRVCLKSFKPDDYSRVCYECHQKVCEDC 40
C C D + VC C C DC
Sbjct: 17 FCYGCQGEL-KDQHVYVCAVCQNVFCVDC 44
>3eu8_A Putative glucoamylase; YP_210071.1, structural genomics, JOI for
structural genomics, JCSG; 2.12A {Bacteroides fragilis
nctc 9343}
Length = 430
Score = 27.3 bits (60), Expect = 1.7
Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 5/63 (7%)
Query: 68 AQPVLSQNSTDSLLDVPVLEALQRRHSDVKIGSANSGAHPANQGLAPPRSPELRRHSDVS 127
+P +S SL D +++ +QRR A P + GLA R +
Sbjct: 4 CKPKEKPSSATSLTDDALMDTVQRRT----FNYFWDAAEPNS-GLARERYHMDGEYPAGG 58
Query: 128 PAS 130
P
Sbjct: 59 PEI 61
>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1,
ring domain, zinc-binding domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 68
Score = 25.9 bits (57), Expect = 1.7
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 15/56 (26%)
Query: 13 CRVCLKSFKPDDYSRVCYEC-HQKVCEDCASYSKLDENQDENTWRCSICRRKLQSR 67
C VC + V C H +C+ C + +C +CR+ +Q
Sbjct: 18 CVVCQN----GTVNWVLLPCRHTCLCDGCV----------KYFQQCPMCRQFVQES 59
>3h34_A Cytochrome C7, cytochrome C3; multiheme cytochrome, geobacter
sulfurreducen electron transport; HET: HEM; 1.60A
{Geobacter sulfurreducens}
Length = 70
Score = 25.8 bits (56), Expect = 1.8
Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 13/47 (27%)
Query: 7 AARLGNCRVC-------LKSFKPDDYSRVCYECHQKV------CEDC 40
+ + CR C +++F D + C CH+ C+ C
Sbjct: 21 SEFVRECRSCHEKTPGKIRNFGKDYAHKTCKGCHEVRGAGPTKCKLC 67
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 25.5 bits (56), Expect = 2.3
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 15/62 (24%)
Query: 13 CRVCLKSFKPDDYSRVCYEC-HQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQPV 71
C++C+ + + V C H C+ CA +C +C + + +
Sbjct: 28 CKICMDR----NIAIVFVPCGHLVTCKQCAEAVD----------KCPMCYTVITFKQKIF 73
Query: 72 LS 73
+S
Sbjct: 74 MS 75
>3p2a_A Thioredoxin 2, putative thioredoxin-like protein; structural
genomics, center for structural genomics of infec
diseases, csgid; 2.19A {Yersinia pestis}
Length = 148
Score = 26.2 bits (58), Expect = 2.5
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 36 VCEDCASYSKLDENQDENTWRCSICRRKLQSRAQPVLSQNSTDSLL--DVPVL 86
VC C + ++L E + ++ +C C L + + D LL D+P++
Sbjct: 7 VCTACMATNRLPEERIDDGAKCGRCGHSLFDGEVINATAETLDKLLQDDLPMV 59
>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA,
apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase,
IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB:
1qbh_A 2l9m_A 3eb5_A 3eb6_A
Length = 345
Score = 26.9 bits (57), Expect = 2.6
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 15/63 (23%)
Query: 12 NCRVCLKSFKPDDYSRVCYEC-HQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQP 70
C+VC+ + S V C H VC++CA + +C ICR ++ +
Sbjct: 297 TCKVCMDK----EVSVVFIPCGHLVVCQECAPSLR----------KCPICRGIIKGTVRT 342
Query: 71 VLS 73
LS
Sbjct: 343 FLS 345
>2vp8_A Dihydropteroate synthase 2; RV1207 transferase, folate
biosynthesis, antibiotic resistance; 2.64A
{Mycobacterium tuberculosis}
Length = 318
Score = 26.4 bits (59), Expect = 2.9
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 83 VPVLEALQRRHSDVKI 98
VP +E L+ + D I
Sbjct: 105 VPFIEWLRGAYPDQLI 120
>2yt5_A Metal-response element-binding transcription factor 2;
zinc-regulated factor 1, ZIRF1, metal-response element
DNA-binding protein M96; NMR {Mus musculus}
Length = 66
Score = 25.2 bits (55), Expect = 3.2
Identities = 10/57 (17%), Positives = 19/57 (33%), Gaps = 2/57 (3%)
Query: 13 CRVCLKSFKPDDYSRV-CYECHQKVCEDC-ASYSKLDENQDENTWRCSICRRKLQSR 67
C +C + + V C +C Q + C + + W C C ++
Sbjct: 9 CTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTTK 65
>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain,
leukemia, apoptosis, chromati regulator, DNA-binding,
isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A*
3lqj_A* 2kyu_A
Length = 183
Score = 26.1 bits (56), Expect = 3.9
Identities = 17/76 (22%), Positives = 27/76 (35%), Gaps = 8/76 (10%)
Query: 13 CRVCLKSFKPDDYSRV---CYECHQKVCEDC-----ASYSKLDENQDENTWRCSICRRKL 64
C +C K + DDY C +C + V C Y L + + C C +
Sbjct: 5 CPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH 64
Query: 65 QSRAQPVLSQNSTDSL 80
+ + L + SL
Sbjct: 65 PAEWRLALEKELQISL 80
>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 = 25.5 bits (55), Expect = 4.1
Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 3/64 (4%)
Query: 6 PAARLGNCRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQ 65
P +C+ C F + C +C + C C+S N C R
Sbjct: 15 PTGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQV---GNGPRLCLLCQRFRATAF 71
Query: 66 SRAQ 69
R +
Sbjct: 72 QREE 75
>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 = 25.9 bits (57), Expect = 4.7
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 1/34 (2%)
Query: 12 NCRVCLKSFKPDDYSRV-CYECHQKVCEDCASYS 44
+C+ C + Y CY C ++C
Sbjct: 359 SCKACQMLLRGTFYQGYRCYRCRAPAHKECLGRV 392
>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring
domain, structural GE consortium, SGC; 2.39A {Homo
sapiens} PDB: 2asq_B
Length = 360
Score = 26.1 bits (56), Expect = 4.7
Identities = 13/49 (26%), Positives = 17/49 (34%), Gaps = 2/49 (4%)
Query: 16 CLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKL 64
C C C D A Y L N+ + TW C +C +K
Sbjct: 218 CPLGKMRLTIPCRAVTCTHLQCFDAALY--LQMNEKKPTWICPVCDKKA 264
>3tov_A Glycosyl transferase family 9; structural genomics, PSI-BIOL
protein structure initiative, midwest center for
structural genomics, MCSG; 2.98A {Veillonella parvula}
Length = 349
Score = 25.7 bits (57), Expect = 5.1
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 78 DSLLDVPVLEALQRRHSDVKI 98
D +L P LE L++ I
Sbjct: 21 DVILTTPFLEVLRKAAPHSHI 41
>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA
repair, ring finger domain, metal binding, DNA
replication; 1.75A {Homo sapiens}
Length = 124
Score = 25.3 bits (55), Expect = 5.3
Identities = 14/66 (21%), Positives = 21/66 (31%), Gaps = 11/66 (16%)
Query: 12 NCRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQPV 71
C C + + + C VC+DC LD + + C CR L
Sbjct: 54 QCICCQELV----FRPITTVCQHNVCKDC-----LDRSFRAQVFSCPACRYDLGRS--YA 102
Query: 72 LSQNST 77
+ N
Sbjct: 103 MQVNQP 108
>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM-
protein 2, SLIM 2, FHL3, SLIM2, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 82
Score = 24.8 bits (54), Expect = 5.6
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 25 YSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQSR 67
++ C EC Q + D D + E +RC C+R L
Sbjct: 14 FANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADE 56
>3h4n_A Cytochrome C7, cytochrome C3; multiheme cytochrome, geobacter
sulfurreducen electron transport; HET: HEM; 1.35A
{Geobacter sulfurreducens}
Length = 72
Score = 24.2 bits (52), Expect = 7.5
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 14/48 (29%)
Query: 7 AARLGNCRVC--------LKSFKPDDYSRVCYECHQKV------CEDC 40
A G C+ C + D + C CH+++ C +C
Sbjct: 22 AGVKGECKACHETEAGGKIAGMGKDWAHKTCTGCHKEMGKGPTKCGEC 69
>2gt1_A Lipopolysaccharide heptosyltransferase-1; GT-B fold; 1.90A
{Escherichia coli UTI89} PDB: 2h1f_A* 2h1h_A*
Length = 326
Score = 25.3 bits (56), Expect = 7.6
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 78 DSLLDVPVLEALQRRHSDVKI 98
D L +P L Q+ +K
Sbjct: 13 DVLHTLPALTDAQQAIPGIKF 33
>3axs_A Probable N(2),N(2)-dimethylguanosine tRNA methylt TRM1; structural
genomics, riken structural genomics/proteomics in RSGI;
HET: SFG; 2.16A {Aquifex aeolicus} PDB: 3axt_A*
Length = 392
Score = 25.2 bits (54), Expect = 9.0
Identities = 7/66 (10%), Positives = 21/66 (31%), Gaps = 6/66 (9%)
Query: 7 AARLGNCRVCLKSFKPDDYSRVCYECHQKVCEDCASYSKLDENQDENTWRCSICR-RKLQ 65
AA+ + + ++ Y ++ + + V + + C C R++
Sbjct: 202 AAQYDIAMIPIFAYSHLHYFKLFFVKERGVEKVDKLIEQFG-----YIQYCFNCMNREVV 256
Query: 66 SRAQPV 71
+
Sbjct: 257 TDLYKF 262
>3u50_C Telomerase-associated protein 82; TEB1, processivity factor, DNA
BIND protein; 2.50A {Tetrahymena thermophila}
Length = 172
Score = 25.0 bits (54), Expect = 9.3
Identities = 7/51 (13%), Positives = 17/51 (33%), Gaps = 11/51 (21%)
Query: 29 CYECHQKVCEDCASYSKLDENQDENTWRCSICRRKLQSRAQPVLSQNSTDS 79
C + V + +++ C C++ + + +L DS
Sbjct: 45 CTCQGKSVLK-----------YHGDSFFCESCQQFINPQVHLMLRAFVQDS 84
>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease,
substrate ENZY complex, hydrolase-protein binding
complex; HET: CME; 1.26A {Homo sapiens} PDB: 2hd5_A
2ibi_A
Length = 348
Score = 25.1 bits (55), Expect = 9.5
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 32 CHQKVCEDC-ASYSKLDENQDENTWRCSICRRK 63
+ DC ++K D + C CR +
Sbjct: 193 YPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGR 225
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
0.315 0.129 0.395
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,921,419
Number of extensions: 99073
Number of successful extensions: 479
Number of sequences better than 10.0: 1
Number of HSP's gapped: 464
Number of HSP's successfully gapped: 119
Length of query: 135
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 51
Effective length of database: 4,356,429
Effective search space: 222177879
Effective search space used: 222177879
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 (21.6 bits)
S2: 52 (24.5 bits)