RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3565
(168 letters)
>2d9g_A YY1-associated factor 2; ZF-ranbp domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 53
Score = 77.5 bits (190), Expect = 5e-20
Identities = 32/46 (69%), Positives = 34/46 (73%)
Query: 17 KQAKDENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKPRITPDLV 62
+ DE YWDCSVCT+RN AEAFKC MCDVRKGTSTRKPR
Sbjct: 4 GSSGDEGYWDCSVCTFRNSAEAFKCMMCDVRKGTSTRKPRPVSQSG 49
>3gj7_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.93A {Rattus norvegicus} PDB:
2k0c_A 3ch5_B* 3gj6_B*
Length = 98
Score = 41.8 bits (97), Expect = 7e-06
Identities = 9/41 (21%), Positives = 12/41 (29%)
Query: 19 AKDENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKPRITP 59
+ W C C +N KC C K + T
Sbjct: 4 GSAGSSWQCDTCLLQNKVTDNKCIACQAAKLPLKETAKQTG 44
Score = 40.7 bits (94), Expect = 2e-05
Identities = 13/41 (31%), Positives = 16/41 (39%)
Query: 8 RKTPTKRRRKQAKDENYWDCSVCTYRNVAEAFKCSMCDVRK 48
+ T K WDC C +N EA KC C+ K
Sbjct: 56 STSGTGFGDKFKPAIGTWDCDTCLVQNKPEAVKCVACETPK 96
>3gj8_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.82A {Rattus norvegicus} PDB:
3gj4_B*
Length = 92
Score = 41.1 bits (95), Expect = 1e-05
Identities = 14/44 (31%), Positives = 18/44 (40%)
Query: 5 GMDRKTPTKRRRKQAKDENYWDCSVCTYRNVAEAFKCSMCDVRK 48
K K E WDC VC +N A++ KC C+ K
Sbjct: 46 VSLPSGGCLGLDKFKKPEGSWDCEVCLVQNKADSTKCIACESAK 89
Score = 37.6 bits (86), Expect = 2e-04
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRKGTSTRKP 55
W+C VC N AE +C C K
Sbjct: 9 WECPVCCVSNKAEDSRCVSCTSEKPGLVSAS 39
>3ixs_B RING1 and YY1-binding protein; RING1B, RYBP, polycomb, E3-ligase,
chromosomal protein, TRAN regulation, chromatin
regulator; HET: NHE; 1.70A {Homo sapiens}
Length = 37
Score = 37.1 bits (85), Expect = 1e-04
Identities = 19/33 (57%), Positives = 27/33 (81%)
Query: 105 PKLKHVDRTTAQTLEITVNNLTVKVTEFKPKIK 137
P+LK+VDR+TAQ L +TV N+TV +T+FK K +
Sbjct: 4 PRLKNVDRSTAQQLAVTVGNVTVIITDFKEKTR 36
>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting,
protein transpo; 3.60A {Saccharomyces cerevisiae} SCOP:
a.4.5.54 a.4.5.54
Length = 566
Score = 38.1 bits (87), Expect = 7e-04
Identities = 12/113 (10%), Positives = 27/113 (23%), Gaps = 6/113 (5%)
Query: 10 TPTKRRRKQAKDENYWDCSVCTYRNVAEAFKCSMCD------VRKGTSTRKPRITPDLVA 63
P + Q + C CT+ N + C +C + + + V
Sbjct: 166 DPNANPQNQFGVNSENICPACTFANHPQIGNCEICGHRLPNASKVRSKLNRLNFHDSRVH 225
Query: 64 QVTQQYPVPATSKVGPKKEGGGKEKSENRKFKKHGRRKWNPPKLKHVDRTTAQ 116
++ + S + R+ + +R
Sbjct: 226 IELEKNSLARNKSSHSALSSSSSTGSSTEFVQLSFRKSDGVLFSQATERALEN 278
Score = 29.6 bits (65), Expect = 0.46
Identities = 11/67 (16%), Positives = 15/67 (22%), Gaps = 9/67 (13%)
Query: 1 MKIKGMDRKTPTKRRRKQAKDENYWDCSVCTYRNVAEA---------FKCSMCDVRKGTS 51
K + A + W C +C N + C C V
Sbjct: 94 FKDPSSKDELGKSAETASADVVSTWVCPICMVSNETQGEFTKDTLPTPICINCGVPADYE 153
Query: 52 TRKPRIT 58
K I
Sbjct: 154 LTKSSIN 160
>2ebr_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin
NUP153, 153 kDa nucleoporin, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 47
Score = 35.0 bits (80), Expect = 8e-04
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 19 AKDENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKP 55
+ E WDC +C +N A++ KC C+ K +
Sbjct: 6 SGPEGSWDCELCLVQNKADSTKCLACESAKPGTKSGF 42
>2ebq_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin
NUP153, 153 kDa nucleoporin, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 47
Score = 33.5 bits (76), Expect = 0.003
Identities = 13/41 (31%), Positives = 18/41 (43%)
Query: 18 QAKDENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKPRIT 58
+ WDC C +N EA KC C+ K + K +T
Sbjct: 5 SSGVIGTWDCDTCLVQNKPEAIKCVACETPKPGTCVKRALT 45
>3gj5_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.79A {Rattus norvegicus}
Length = 34
Score = 32.9 bits (75), Expect = 0.003
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 22 ENYWDCSVCTYRNVAEAFKCSMCDVRK 48
WDC VC +N A++ KC C+ K
Sbjct: 5 SGSWDCEVCLVQNKADSTKCIACESAK 31
>3gj3_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.79A {Rattus norvegicus} PDB:
2gqe_A
Length = 33
Score = 32.2 bits (73), Expect = 0.006
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 22 ENYWDCSVCTYRNVAEAFKCSMCDVRK 48
WDC C +N EA KC C+ K
Sbjct: 5 SGTWDCDTCLVQNKPEAVKCVACETPK 31
>1nj3_A NPL4; NZF domain, rubredoxin knuckle, beta-ribbon, zinc- finger,
ubiquitin, protein binding; NMR {Rattus norvegicus}
SCOP: g.41.11.1 PDB: 1q5w_A
Length = 31
Score = 31.5 bits (71), Expect = 0.010
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 25 WDCSVCTYRNVAEAFKCSMCD 45
W C CT+ N C MC
Sbjct: 7 WACQHCTFMNQPGTGHCEMCS 27
>2ebv_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin
NUP153, 153 kDa nucleoporin, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 57
Score = 31.9 bits (72), Expect = 0.012
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 19 AKDENYWDCSVCTYRNVAEAFKCSMCDVRK 48
+ W+CSVC N AE KC C K
Sbjct: 26 KRPIGSWECSVCCVSNNAEDNKCVSCMSEK 55
>3a9j_C Mitogen-activated protein kinase kinase kinase 7- interacting
protein 2; protein complex, cytoplasm, isopeptide bond,
metal-binding, zinc; 1.18A {Mus musculus} PDB: 2wwz_C
2wx0_C 2wx1_C 3a9k_C
Length = 34
Score = 31.1 bits (70), Expect = 0.015
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 25 WDCSVCTYRNVAEAFKCSMCD 45
W+C+ CT+ N +C C+
Sbjct: 9 WNCTACTFLNHPALIRCEQCE 29
>2crc_A Ubiquitin conjugating enzyme 7 interacting protein 3; ZF-ranbp
domain, hepatitis B virus X-associated protein 4, HBV
associated factor 4; NMR {Homo sapiens}
Length = 52
Score = 30.8 bits (69), Expect = 0.029
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRKGTSTRKP 55
W C CT+ N C MC + + + P
Sbjct: 11 WQCPGCTFINKPTRPGCEMCCRARPEAYQVP 41
>3b08_B Ranbp-type and C3HC4-type zinc finger-containing; protein
complex, signaling protein-metal binding protein COM;
HET: TRE; 1.70A {Mus musculus} PDB: 3b0a_B*
Length = 64
Score = 30.1 bits (67), Expect = 0.056
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRKGTSTRKP 55
W C CT+ N C MC + + + P
Sbjct: 9 WQCPGCTFINKPTRPGCEMCCRARPETYQIP 39
>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 = 29.5 bits (65), Expect = 0.29
Identities = 7/27 (25%), Positives = 12/27 (44%), Gaps = 2/27 (7%)
Query: 133 KPKIKKSILDSDLSSVENDSQSESSLN 159
K +KK L + L +DS ++
Sbjct: 19 KQALKK--LQASLKLYADDSAPALAIK 43
>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron
transfer, DIIR center, oxidoreductase; 1.40A
{Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1
PDB: 1yv1_A 1yux_A
Length = 202
Score = 29.7 bits (66), Expect = 0.31
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 12 TKRRRKQAKDENYWDCSVCTYRNVAEAF-KCSMCDVRKG 49
D+ + C +C Y + E F KC +C K
Sbjct: 159 AYNDIDAPDDDKFHLCPICGYIHKGEDFEKCPICFRPKD 197
>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress,
oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A
3pza_A 3qvd_A 1nnq_A 2hr5_A
Length = 170
Score = 28.9 bits (64), Expect = 0.50
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 20 KDENYWDCSVCTYRNVAEAF-KCSMCDVRKG 49
+ + + C +C Y V EA C +C K
Sbjct: 134 EIKKVYICPICGYTAVDEAPEYCPVCGAPKE 164
>2l0k_A Stage III sporulation protein D; SPOIIID, solution structure, DNA
binding, bacillus subti transcription factor,
transcription; NMR {Bacillus subtilis}
Length = 93
Score = 28.3 bits (63), Expect = 0.54
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 30 CTYRNVAEAFKCSMCDVRKGTSTRKPRITPDLVAQV 65
T R +A+ F S V K + R P I PDL +V
Sbjct: 21 KTVRVIAKEFGVSKSTVHKDLTERLPEINPDLANEV 56
>2i50_A Ubiquitin carboxyl-terminal hydrolase 16; alpha/beta zinc-finger,
ring-finger, ZNF-UBP, metalloprotein, ubiquitin-binding
protein, USP; NMR {Homo sapiens}
Length = 126
Score = 27.4 bits (60), Expect = 1.5
Identities = 4/33 (12%), Positives = 10/33 (30%)
Query: 16 RKQAKDENYWDCSVCTYRNVAEAFKCSMCDVRK 48
+K + + C C N + + +
Sbjct: 20 KKALVNVEWNICQDCKTDNKVKDKAEEETEEKP 52
>1zyo_A Serine protease; beta-barrel, glutamyl endopeptidase, hydrolase;
2.40A {Sesbania mosaic virus}
Length = 191
Score = 27.1 bits (59), Expect = 2.6
Identities = 10/59 (16%), Positives = 21/59 (35%)
Query: 109 HVDRTTAQTLEITVNNLTVKVTEFKPKIKKSILDSDLSSVENDSQSESSLNTKNGDITT 167
HV + + + V V +++ + S D + V + S L K+ +
Sbjct: 47 HVWCNSMRPTGLAKAGKQVSVEDWEISMSSSDKMLDFAIVRVPTHVWSKLGVKSTPLVC 105
>2yuj_A Ubiquitin fusion degradation 1-like; ubiquitin-dependent
proteolytic, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 190
Score = 26.8 bits (59), Expect = 2.9
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 113 TTAQTLEITVNNLT--VKVTEFKPKIKKSILDSDL 145
TT + I N ++V E KP SI++ D+
Sbjct: 150 TTGDVIAINYNEKIYELRVMETKPDKAVSIIECDM 184
>2k1p_A Zinc finger RAN-binding domain-containing protein 2; ZNF265, RNA
binding, ranbp2, RBZ, ZIS, alternative splicing,
metal-binding, mRNA processing; NMR {Homo sapiens} PDB:
3g9y_A
Length = 33
Score = 23.8 bits (51), Expect = 5.5
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 22 ENYWDCSVCTYRNVAEAFKCSMCDVRK 48
N W C C+ N A +C+MC+ K
Sbjct: 4 ANDWQCKTCSNVNWARRSECNMCNTPK 30
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
0.310 0.126 0.364
Gapped
Lambda K H
0.267 0.0529 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,316,204
Number of extensions: 122808
Number of successful extensions: 218
Number of sequences better than 10.0: 1
Number of HSP's gapped: 218
Number of HSP's successfully gapped: 36
Length of query: 168
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 81
Effective length of database: 4,272,666
Effective search space: 346085946
Effective search space used: 346085946
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 (21.8 bits)
S2: 54 (25.0 bits)