RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12771
(160 letters)
>3oky_B Putative uncharacterized protein; transmembrane, ligand,
SEMA-domain, cell-CELL signalling, SI protein; HET: NAG;
2.19A {Mus musculus} PDB: 3okw_A* 3afc_A* 3al8_A*
Length = 565
Score = 50.1 bits (118), Expect = 5e-08
Identities = 27/95 (28%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 55 WKILENNLTHLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFT 114
+ L G SG+A+CPYD + A++ + LYS T +F
Sbjct: 130 RNYRVDTLETFGDEF------SGMARCPYDAKHANIALFAD-------GKLYSATVTDFL 176
Query: 115 KADTVIFRTDLLNFTTGKKEYTFKRTIKYDSKWLD 149
D VI+R+ + RT+K+DSKWL
Sbjct: 177 AIDAVIYRS--------LGDSPTLRTVKHDSKWLK 203
>1q47_A Semaphorin 3A; beta propeller, signaling protein; HET: NAG; 2.80A
{Mus musculus} SCOP: b.69.12.1
Length = 495
Score = 49.6 bits (117), Expect = 8e-08
Identities = 24/95 (25%), Positives = 40/95 (42%), Gaps = 15/95 (15%)
Query: 55 WKILENNLTHLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFT 114
+ + ++ +G K PYDP + ++ ++ LYSGT A+F
Sbjct: 118 YIEVGHHPEDNIFKLQDSHFENGRGKSPYDPKLLTASLLIDGE-------LYSGTAADFM 170
Query: 115 KADTVIFRTDLLNFTTGKKEYTFKRTIKYDSKWLD 149
D IFRT + RT ++DS+WL+
Sbjct: 171 GRDFAIFRTLG--------HHHPIRTEQHDSRWLN 197
>3nvq_A Semaphorin-7A; beta-propeller, signaling, signaling protein-protein
binding; HET: NAG NDG; 2.40A {Homo sapiens}
Length = 590
Score = 46.2 bits (108), Expect = 1e-06
Identities = 9/54 (16%), Positives = 17/54 (31%), Gaps = 7/54 (12%)
Query: 74 IGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFTKADTVIFRTDLLN 127
+G P+ P++NS ++ +YS + FR
Sbjct: 119 LGEMRGYAPFSPDENSLVLFEG-------DEVYSTIRKQEYNGKIPRFRRIRGE 165
>1olz_A Semaphorin 4D; developmental protein, CD100, beta-propeller, PSI
domain, IG-like domain, extracellular receptor,
neurogenesis; 2.0A {Homo sapiens} SCOP: b.1.1.4
b.69.12.1 g.16.2.1 PDB: 3ol2_A*
Length = 663
Score = 45.5 bits (106), Expect = 2e-06
Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 17/86 (19%)
Query: 64 HLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFTKADTVIFRT 123
+L + + G +CP+DP + T++ V+ LYSGT+ F ++ +I R
Sbjct: 118 NLTSFKFLGKNEDGKGRCPFDPAHSYTSVMVD-------GELYSGTSYNFLGSEPIISRN 170
Query: 124 DLLNFTTGKKEYTFKRTIKYDSKWLD 149
+ RT +Y WL+
Sbjct: 171 SSHS---------PLRT-EYAIPWLN 186
>3nvn_B Plexin-C1; beta-propeller, signaling, viral protein-signaling
protein C; HET: NDG NAG; 2.26A {Homo sapiens} PDB:
3nvq_B*
Length = 476
Score = 41.5 bits (96), Expect = 4e-05
Identities = 13/89 (14%), Positives = 20/89 (22%), Gaps = 7/89 (7%)
Query: 61 NLTHLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFTKADTVI 120
L +L R+ G P STA V + N L + +
Sbjct: 104 PLGNLSRNSLRNGTE----VVSCHPQ-GSTAGVVYRAGRNNRWYLAVAAT--YVLPEPET 156
Query: 121 FRTDLLNFTTGKKEYTFKRTIKYDSKWLD 149
+ K T +
Sbjct: 157 ASRCNPAASDHDTAIALKDTEGRSLATQE 185
>3ol2_B Plexin-B1; beta-propeller, signalling, extacellular, signaling
protein; HET: NAG BMA; 2.99A {Homo sapiens}
Length = 528
Score = 37.8 bits (86), Expect = 7e-04
Identities = 19/95 (20%), Positives = 27/95 (28%), Gaps = 6/95 (6%)
Query: 60 NNLTHLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEF--TKAD 117
L L PG DP ST V +G G P L+ G
Sbjct: 109 GQLEQLLLRPERPG--DTQYVAANDPAV-STVGLVAQGLAGE-PLLFVGRGYTSRGVGGG 164
Query: 118 TVIFRTDLLNFTTGKKEYTFKRTIKYDSKWLDSFK 152
T L + ++++ T K L +
Sbjct: 165 IPPITTRALWPPDPQAAFSYEETAKLAVGRLSEYS 199
>2uzx_B Hepatocyte growth factor receptor; signaling protein/receptor,
leucine rich repeat, receptor ectodomain, signaling
protein, ATP-binding; 2.8A {Homo sapiens} PDB: 2uzy_B
1shy_B 1ssl_A
Length = 727
Score = 36.5 bits (83), Expect = 0.002
Identities = 13/101 (12%), Positives = 25/101 (24%), Gaps = 6/101 (5%)
Query: 58 LENNLTHLGRHEHVPGIGSGIAKCPY--DPNDNSTAIWVEKGNPGNLPALYSGTNAEFTK 115
+N T + E I + D ++ V + G +
Sbjct: 125 FPHNHTADIQSEVHCIFSPQIEEPSQCPDCVVSALGAKVLSSVKDRFINFFVGNTINSSY 184
Query: 116 ADTVIFRT----DLLNFTTGKKEYTFKRTIKYDSKWLDSFK 152
+ L G T + I ++ DS+
Sbjct: 185 FPDHPLHSISVRRLKETKDGFMFLTDQSYIDVLPEFRDSYP 225
>3nvx_A Protein A39; beta-propeller, viral protein; HET: NAG; 2.00A
{Vaccinia virus} PDB: 3nvn_A*
Length = 383
Score = 35.9 bits (82), Expect = 0.003
Identities = 11/70 (15%), Positives = 18/70 (25%), Gaps = 12/70 (17%)
Query: 76 SGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFTKADTVIFRTDLLNFTTGKKEY 135
G PY + + + E ++ + I R + G Y
Sbjct: 87 RGRGYAPYQNSKVTIISYNE------------CVLSDINISKEGIKRWRRFDGPCGYDLY 134
Query: 136 TFKRTIKYDS 145
T I D
Sbjct: 135 TADNVIPKDG 144
>3al9_A Plexin-A2; beta-propeller, membrane protein, signaling protein;
HET: NAG; 2.10A {Mus musculus} PDB: 3al8_B*
Length = 539
Score = 34.2 bits (77), Expect = 0.012
Identities = 10/53 (18%), Positives = 16/53 (30%), Gaps = 2/53 (3%)
Query: 76 SGIAKCPYDPNDNSTA--IWVEKGNPGNLPALYSGTNAEFTKADTVIFRTDLL 126
K Y + N T V + G L+ GT + + + L
Sbjct: 121 PSHKKEHYLSSVNKTGTMYGVIVRSEGEDGKLFIGTAVDGKQDYFPTLSSRKL 173
>3oky_A Plexin-A2; transmembrane, ligand, SEMA-domain, cell-CELL
signalling, SI protein; HET: NAG; 2.19A {Mus musculus}
PDB: 3okt_A*
Length = 681
Score = 33.1 bits (74), Expect = 0.034
Identities = 12/66 (18%), Positives = 20/66 (30%), Gaps = 10/66 (15%)
Query: 60 NNLTHLGRHEHVPGIGSGIAKCPYDPNDNSTA--IWVEKGNPGNLPALYSGTNAEFTKAD 117
++L L H K Y + N T V + G L+ GT + +
Sbjct: 112 DDLFILVEPSH--------KKEHYLSSVNKTGTMYGVIVRSEGEDGKLFIGTAVDGKQDY 163
Query: 118 TVIFRT 123
+
Sbjct: 164 FPTLSS 169
>2c4e_A Sugar kinase MJ0406; transferase, nucleoside kinase,
hyperthermophIle, ribokinase ribokinase fold; 1.70A
{Methanococcus jannaschii} PDB: 2c49_A
Length = 302
Score = 31.4 bits (72), Expect = 0.089
Identities = 15/98 (15%), Positives = 28/98 (28%), Gaps = 16/98 (16%)
Query: 53 FFWKILENNLTHLG---RH-EHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPALYSG 108
F E L +L + + A D ++N G
Sbjct: 69 FKNSGYERYLKNLDINISKLYYSEEEETPKAWIFTDKDNNQITF------------FLWG 116
Query: 109 TNAEFTKADTVIFRTDLLNFTTGKKEYTFKRTIKYDSK 146
+ + + F T++++ TG E+ K K
Sbjct: 117 AAKHYKELNPPNFNTEIVHIATGDPEFNLKCAKKAYGN 154
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 31.2 bits (70), Expect = 0.15
Identities = 18/110 (16%), Positives = 33/110 (30%), Gaps = 33/110 (30%)
Query: 4 FLGLPPLSFENQHNFP--AVPPQLATFFGVKKVVEEEEEEEKKKE------RGFTKVFFW 55
F+G+ +P ++PP ++E+ E + T+
Sbjct: 305 FIGV-----RCYEAYPNTSLPP---------SILEDSLENNEGVPSPMLSISNLTQEQVQ 350
Query: 56 KILENNLTHLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGNPGNLPAL 105
+ +HL + V I+ N V G P +L L
Sbjct: 351 DYVNKTNSHLPAGKQV-----EIS------LVNGAKNLVVSGPPQSLYGL 389
>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 = 28.0 bits (61), Expect = 1.0
Identities = 12/73 (16%), Positives = 18/73 (24%), Gaps = 46/73 (63%)
Query: 39 EEEEKKKERGFTKVFFWKILENNLTHLGRHEHVPGIGSGIAKCPYDPNDNSTAIWVEKGN 98
E++ KK L+ +L K Y D++
Sbjct: 18 EKQALKK------------LQASL-----------------K-LYAD-DSA--------- 37
Query: 99 PGNLPALYSGTNA 111
PAL A
Sbjct: 38 ----PAL--AIKA 44
>2p1m_A SKP1-like protein 1A; F-BOX, leucine rich repeat, signaling
protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB:
2p1n_A* 2p1o_A* 2p1p_A* 2p1q_A* 3c6n_A* 3c6o_A* 3c6p_A*
3ogk_A* 3ogl_A* 3ogm_A*
Length = 160
Score = 27.1 bits (59), Expect = 2.4
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 22 PPQLATFFGVKKVVEEEEEEEKKKE 46
P ++ T F +K EEEEE ++E
Sbjct: 130 PEEIRTTFNIKNDFTPEEEEEVRRE 154
>2ast_A S-phase kinase-associated protein 1A; SCF-substrate complex, LRR,
cell cycle, protein turnover COM ligase-ligase inhibitor
complex; HET: TPO; 2.30A {Homo sapiens} PDB: 2ass_A*
2e31_B 2e32_B 3l2o_A 1p22_B* 2ovr_A* 2ovp_A 1fqv_B*
2ovq_A*
Length = 159
Score = 26.7 bits (58), Expect = 2.5
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 22 PPQLATFFGVKKVVEEEEEEEKKKE 46
P ++ F +K EEEE + +KE
Sbjct: 131 PEEIRKTFNIKNDFTEEEEAQVRKE 155
>3v7d_A Suppressor of kinetochore protein 1; WD 40 domain, phospho-peptide
complex, E3 ubiquitin ligase, cell cycle, phospho
binding protein, phosphorylation; HET: SEP; 2.31A
{Saccharomyces cerevisiae} PDB: 1nex_A* 3mks_A*
Length = 169
Score = 26.7 bits (58), Expect = 3.3
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 22 PPQLATFFGVKKVVEEEEEEEKKKE 46
P ++ F + EEE ++E
Sbjct: 138 PEEIRRTFNIVNDFTPEEEAAIRRE 162
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 4.2
Identities = 4/15 (26%), Positives = 8/15 (53%)
Query: 32 KKVVEEEEEEEKKKE 46
+K ++E + K E
Sbjct: 95 RKRLQELDAASKVME 109
Score = 25.5 bits (55), Expect = 7.2
Identities = 2/16 (12%), Positives = 8/16 (50%)
Query: 32 KKVVEEEEEEEKKKER 47
K++ E + + ++
Sbjct: 96 KRLQELDAASKVMEQE 111
>1sqj_A OXG-RCBH, oligoxyloglucan reducing-END-specific cellobiohydrolase;
beta-propeller; 2.20A {Geotrichum SP} SCOP: b.69.13.1
b.69.13.1 PDB: 2ebs_A*
Length = 789
Score = 25.9 bits (56), Expect = 7.7
Identities = 6/48 (12%), Positives = 12/48 (25%)
Query: 77 GIAKCPYDPNDNSTAIWVEKGNPGNLPALYSGTNAEFTKADTVIFRTD 124
A P + P L Y+ + ++R +
Sbjct: 219 TGAFPDKKPASIAPQPMKVALTPNFLYVTYADYPGPWGVTFGEVWRQN 266
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
0.317 0.137 0.418
Gapped
Lambda K H
0.267 0.0481 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,538,573
Number of extensions: 145904
Number of successful extensions: 356
Number of sequences better than 10.0: 1
Number of HSP's gapped: 346
Number of HSP's successfully gapped: 22
Length of query: 160
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,300,587
Effective search space: 318243438
Effective search space used: 318243438
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: 53 (24.8 bits)