RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2284
(175 letters)
>2yqq_A Zinc finger HIT domain-containing protein 3; structure genomics,
ZF-HIT domain, TRIP-3, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 56
Score = 37.7 bits (87), Expect = 1e-04
Identities = 10/43 (23%), Positives = 15/43 (34%)
Query: 125 AEAKPSKFPNRHFCAVCGFPSNYTCVPCGARYCCVRCLGTHQD 167
+ + C +C Y C C YC V C H++
Sbjct: 2 SSGSSGLKCSTVVCVICLEKPKYRCPACRVPYCSVVCFRKHKE 44
>1x4s_A Protein FON, zinc finger HIT domain containing protein 2;
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.85.1.2
Length = 59
Score = 35.0 bits (80), Expect = 0.001
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 136 HFCAVCGF-PSNYTCVPCGARYCCVRCLGTHQD 167
FC P+ YTC C A YC +RC TH
Sbjct: 15 GFCPAGEVQPARYTCPRCNAPYCSLRCYRTHGT 47
>2dj8_A Protein CBFA2T1; zinc finger MYND domain, protein MTG8, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
g.85.1.1
Length = 60
Score = 29.5 bits (66), Expect = 0.086
Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 123 ENAEAKPSKFPNRHFCAVCGFPSNYTCVPCG-ARYCCVRC 161
+ + + C CG ++ TC C ARYC C
Sbjct: 3 SGSSGINQQEDSSESCWNCGRKASETCSGCNTARYCGSFC 42
>2odd_A Protein CBFA2T1; MYND zinc finger, cross-braced topology,
poly-proline, proline-tryptophan interaction, metal
binding protein; NMR {Homo sapiens}
Length = 64
Score = 29.2 bits (65), Expect = 0.16
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 125 AEAKPSKFPNRHFCAVCGFPSNYTCVPCG-ARYCCVRC 161
E + + C CG ++ TC C ARYC C
Sbjct: 7 GENLYFQGDSSESCWNCGRKASETCSGCNTARYCGSFC 44
>2od1_A Protein CBFA2T1; zinc finger, cross-braced topology, metal binding
protein; NMR {Homo sapiens}
Length = 60
Score = 28.4 bits (63), Expect = 0.30
Identities = 14/44 (31%), Positives = 17/44 (38%), Gaps = 5/44 (11%)
Query: 119 GSAYENAEAKPSKFPNRHFCAVCGFPSNYTCVPCG-ARYCCVRC 161
GS + S C CG ++ TC C ARYC C
Sbjct: 1 GSPNSGSPNSDSS----ESCWNCGRKASETCSGCNTARYCGSFC 40
>2jw6_A Deformed epidermal autoregulatory factor 1 homolo; zinc binding
domain, transcription, alternative splicing, DI
mutation, DNA-binding; NMR {Homo sapiens} SCOP: g.85.1.1
Length = 52
Score = 27.9 bits (62), Expect = 0.37
Identities = 8/28 (28%), Positives = 9/28 (32%), Gaps = 1/28 (3%)
Query: 135 RHFCAVCGFPSNYTCVPCG-ARYCCVRC 161
C CG + C C YC C
Sbjct: 9 EQSCVNCGREAMSECTGCHKVNYCSTFC 36
>2d8q_A BLU protein, zinc finger MYND domain containing protein 10;
zmynd10, ZF-MYND, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.85.1.1 PDB: 2dan_A
Length = 70
Score = 28.1 bits (62), Expect = 0.37
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 133 PNRHFCAVCGFPSNYTCVPC-GARYCCVRCLGTH 165
P R CA C ++ C C YCC C H
Sbjct: 13 PERPRCAYCSAEASKRCSRCQNEWYCCRECQVKH 46
>1fv5_A First zinc finger of U-shaped; CCHC, protein interaction,
transcription; NMR {Drosophila melanogaster} SCOP:
g.37.1.2 PDB: 1y0j_B 2l6z_B
Length = 36
Score = 27.0 bits (59), Expect = 0.45
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 144 PSNYTCVPCGARYCCVRCLGTHQDTRC 170
P+ + C+PCG + L HQ C
Sbjct: 6 PARFMCLPCGIAFSSPSTLEAHQAYYC 32
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 0.86
Identities = 19/107 (17%), Positives = 33/107 (30%), Gaps = 32/107 (29%)
Query: 12 IKDANKQRVLDEATRQRRARKALESLESDNFHDDPHADLVMNKKAPKFQETLDAKSGSRK 71
I A++ E+ R+ R + + LDA S+
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKR------------------------LQELDAA--SKV 107
Query: 72 KKSKSAEYYKLKTMEGLFHKTNQQNYIFRFRKSLAQMIEEDKALNSQ 118
+ + E K K +E + ++Q K+ DKA Q
Sbjct: 108 MEQEWREKAK-KDLEEWNQRQSEQV-----EKNKINNRIADKAFYQQ 148
>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium,
SGC, metal binding protein; 2.06A {Homo sapiens}
Length = 301
Score = 28.4 bits (63), Expect = 1.2
Identities = 12/61 (19%), Positives = 17/61 (27%), Gaps = 11/61 (18%)
Query: 116 NSQGSAYENAEAKPSKFPNRHFCAVCGFPSNYTCVPCGAR-----------YCCVRCLGT 164
+ + +P V P N C CGA C++C G
Sbjct: 12 SGLVPRGSGHDGEPHDLTKLLIAEVKSRPGNSQCCDCGAADPTWLSTNLGVLTCIQCSGV 71
Query: 165 H 165
H
Sbjct: 72 H 72
>2uv8_G Fatty acid synthase subunit beta (FAS1); fatty acid biosynthesis,
malonyl/palmitoyl transferase, phosphopantetheine,
transferase; HET: GVL FMN; 3.10A {Saccharomyces
cerevisiae} PDB: 2vkz_G* 3hmj_G*
Length = 2051
Score = 28.5 bits (63), Expect = 1.3
Identities = 12/108 (11%), Positives = 33/108 (30%), Gaps = 11/108 (10%)
Query: 8 LSGRIKDANKQRVLDEATRQRRARKALESLESDNFHDDPHADLVMNKKAPKFQETLDAKS 67
+G ++ + + + +K + + + + + KS
Sbjct: 1900 AAGDLRALDT---VTNVLNFIKLQKIDIIELQKSLSLEE-----VEGHLFEIIDEASKKS 1951
Query: 68 GSRKKK---SKSAEYYKLKTMEGLFHKTNQQNYIFRFRKSLAQMIEED 112
+ + + L + FH T N + F+ L + I ++
Sbjct: 1952 AVKPRPLKLERGFACIPLVGISVPFHSTYLMNGVKPFKSFLKKNIIKE 1999
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 26.7 bits (59), Expect = 1.5
Identities = 9/39 (23%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 124 NAEAKPSKFPNRHFCAVC-GFPSNYTCVPCGARYCCVRC 161
+ E + + C +C VPCG C +C
Sbjct: 14 STEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQC 52
>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 = 26.3 bits (58), Expect = 1.8
Identities = 13/40 (32%), Positives = 14/40 (35%), Gaps = 1/40 (2%)
Query: 123 ENAEAKPSKFPNRHFCAVC-GFPSNYTCVPCGARYCCVRC 161
+ K K C VC N T PCG CC C
Sbjct: 6 RVLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESC 45
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 26.7 bits (58), Expect = 2.0
Identities = 12/39 (30%), Positives = 14/39 (35%), Gaps = 4/39 (10%)
Query: 136 HFCAVCGFP--SNYTCVPCGARYC--CVRCLGTHQDTRC 170
HFC CG P +PC +C C D C
Sbjct: 2 HFCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMC 40
>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 = 26.5 bits (57), Expect = 3.5
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 14/41 (34%)
Query: 27 QRRARKALE-SLESDNFHDDPHADLVMNKKAPKF--QETLD 64
+++A K L+ SL+ +AD AP + T++
Sbjct: 18 EKQALKKLQASLK-------LYAD----DSAPALAIKATME 47
>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 = 27.1 bits (59), Expect = 3.7
Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 7/53 (13%)
Query: 17 KQRVLD-EATRQRRARKALESLE--SDNFHDDPHADLV----MNKKAPKFQET 62
K + D + +R L+ L +N + DL+ M + F+E
Sbjct: 531 KPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEA 583
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc
binding, structural genomics, PSI; NMR
{Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Length = 55
Score = 25.0 bits (55), Expect = 3.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 155 RYCCVRCLGTHQDT 168
RYCC R L +H +T
Sbjct: 41 RYCCRRMLISHVET 54
>2yqp_A Probable ATP-dependent RNA helicase DDX59; structure genomics,
ZF-HIT domain, DEAD box polypeptide 59 isoform 2,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 60
Score = 25.1 bits (54), Expect = 4.4
Identities = 10/33 (30%), Positives = 11/33 (33%)
Query: 133 PNRHFCAVCGFPSNYTCVPCGARYCCVRCLGTH 165
P C VCG Y C C + C H
Sbjct: 17 PGEPICVVCGRYGEYICDKTDEDVCSLECKAKH 49
>2v4b_A Adamts-1; zymogen, protease, hydrolase, metalloprotease,
heparin-binding, metalloproteinase, metzincin,
glycoprotein metal-binding; 2.00A {Homo sapiens} PDB:
2jih_A 3q2g_A* 3q2h_A*
Length = 300
Score = 26.3 bits (58), Expect = 4.8
Identities = 10/47 (21%), Positives = 12/47 (25%), Gaps = 5/47 (10%)
Query: 129 PSKFPNRHFCAV----CGFPSNYTCVPCGARYCCV-RCLGTHQDTRC 170
P P + A F + P A C C GT
Sbjct: 222 PGDLPGTSYDANRQCQFTFGEDSKHCPDAASTCSTLWCTGTSGGVLV 268
>2owa_A Arfgap-like finger domain containing protein; zinc finger protein,
cysteine-rich motif, GTPase activation; 2.00A
{Cryptosporidium parvum iowa II}
Length = 138
Score = 25.9 bits (57), Expect = 5.2
Identities = 13/61 (21%), Positives = 19/61 (31%), Gaps = 11/61 (18%)
Query: 116 NSQGSAYENAEAKPSKFPNRHFCAVCGFPSNYTCVPCGAR-----------YCCVRCLGT 164
N + + K + F V P N TC C +R + C+ C
Sbjct: 6 NLINADVDEKGFVSDKLRDNFFQIVRNRPENRTCFDCESRNPTWLSLSFAVFICLNCSSD 65
Query: 165 H 165
H
Sbjct: 66 H 66
>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding;
HET: 1PE 12P; 2.15A {Synthetic}
Length = 211
Score = 26.2 bits (58), Expect = 5.5
Identities = 9/44 (20%), Positives = 17/44 (38%), Gaps = 6/44 (13%)
Query: 10 GRIKDANKQRVLDEATR------QRRARKALESLESDNFHDDPH 47
G I + +++ ++ A LE+ +S N H H
Sbjct: 168 GEIGGERVRAAMEKLAETGTGFARKVAVNYLETHKSFNHHHHHH 211
>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 = 26.2 bits (57), Expect = 6.2
Identities = 8/47 (17%), Positives = 13/47 (27%), Gaps = 10/47 (21%)
Query: 117 SQGSAYENAEAKPSKFPNRHFCAVCG-FPSN---------YTCVPCG 153
++ S + A + C C +P C CG
Sbjct: 3 TRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCG 49
>2iqj_A Stromal membrane-associated protein 1-like; zinc, structural
genomics, structural genomics consortium, SGC, protein
transport; 1.90A {Homo sapiens}
Length = 134
Score = 25.5 bits (56), Expect = 6.2
Identities = 8/33 (24%), Positives = 11/33 (33%), Gaps = 11/33 (33%)
Query: 144 PSNYTCVPCGARY-----------CCVRCLGTH 165
N C C ++ C+RC G H
Sbjct: 25 EDNKFCADCQSKGPRWASWNIGVFICIRCAGIH 57
>2crr_A Stromal membrane-associated protein SMAP1B; arfgap domain, zinc
finger, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 141
Score = 25.6 bits (56), Expect = 6.2
Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 11/33 (33%)
Query: 144 PSNYTCVPCGAR-----------YCCVRCLGTH 165
N C C A+ + C+RC G H
Sbjct: 27 EDNKYCADCEAKGPRWASWNIGVFICIRCAGIH 59
>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 = 24.4 bits (53), Expect = 7.0
Identities = 9/42 (21%), Positives = 12/42 (28%), Gaps = 1/42 (2%)
Query: 121 AYENAEAKPSKFPNRHFCAVC-GFPSNYTCVPCGARYCCVRC 161
+ N C VC N+ +PC C C
Sbjct: 1 GSSGSSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGC 42
>3sub_A ADP-ribosylation factor GTPase-activating protein; protein
trafficking, hydrolase AC; 2.40A {Plasmodium falciparum
3D7}
Length = 163
Score = 25.7 bits (56), Expect = 7.0
Identities = 9/33 (27%), Positives = 11/33 (33%), Gaps = 11/33 (33%)
Query: 144 PSNYTCVPCGAR-----------YCCVRCLGTH 165
SN C CG + C+ C G H
Sbjct: 20 ESNNKCFDCGISNPDWVSVNHGIFLCINCSGVH 52
>2crw_A ARF GAP 3, ADP-ribosylation factor GTPase-activating protein 3;
arfgap domain, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 149
Score = 25.7 bits (56), Expect = 7.2
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 119 GSAYENAEAKPSKFPNRH-FCAVCGFPSNYTCVPCGAR-----------YCCVRCLGTH 165
GS+ + PSK F + P+N C CGA+ + C+ C G+H
Sbjct: 1 GSSGSSGMGDPSKQDILTIFKRLRSVPTNKVCFDCGAKNPSWASITYGVFLCIDCSGSH 59
>2ko5_A Ring finger protein Z; lassa fever virus-Z, negative regulator of
EIF4E, cytoplasm, HOST-virus interaction, lipoprotein,
membrane; NMR {Lassa virus josiah}
Length = 99
Score = 25.1 bits (54), Expect = 8.0
Identities = 11/28 (39%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 135 RHFCAVCGFPSNYTCVPCGARYCCVRCL 162
FC C F N V C Y C+ CL
Sbjct: 28 PQFCKSCWF-ENKGLVECNNHYLCLNCL 54
>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 = 25.4 bits (55), Expect = 8.1
Identities = 6/41 (14%), Positives = 11/41 (26%), Gaps = 1/41 (2%)
Query: 126 EAKPSKFPNRHFCAVCGFPSN-YTCVPCGARYCCVRCLGTH 165
+ K + + C+ CG + C H
Sbjct: 33 DCKTDNKVKDKAEEETEEKPSVWLCLKCGHQGCGRNSQEQH 73
>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 = 24.9 bits (54), Expect = 8.9
Identities = 9/38 (23%), Positives = 11/38 (28%), Gaps = 5/38 (13%)
Query: 133 PNRHFCAVCGFPSN-----YTCVPCGARYCCVRCLGTH 165
P+ C C + C CG CC H
Sbjct: 16 PSALGCEECLKIGSPWVHLRICRTCGHVGCCDDSPHKH 53
>2p57_A GTPase-activating protein ZNF289; zinc finger, GAP, structural
genomics, structural genomics consortium, SGC, metal
binding protein; 1.80A {Homo sapiens}
Length = 144
Score = 25.3 bits (55), Expect = 9.1
Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 12/58 (20%)
Query: 120 SAYENAEAKPSKFPNRH-FCAVCGFPSNYTCVPCGAR-----------YCCVRCLGTH 165
A+P+K + F + P+N C CGA+ + C+ C G H
Sbjct: 10 GLVPRGSAEPNKTEIQTLFKRLRAVPTNKACFDCGAKNPSWASITYGVFLCIDCSGVH 67
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
0.318 0.129 0.391
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,463,864
Number of extensions: 131442
Number of successful extensions: 617
Number of sequences better than 10.0: 1
Number of HSP's gapped: 617
Number of HSP's successfully gapped: 62
Length of query: 175
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 88
Effective length of database: 4,272,666
Effective search space: 375994608
Effective search space used: 375994608
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 (21.8 bits)
S2: 54 (24.7 bits)