RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5392
(100 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 = 109 bits (273), Expect = 7e-30
Identities = 55/104 (52%), Positives = 70/104 (67%), Gaps = 6/104 (5%)
Query: 2 DPIIYR-----EPLQTEQYDSMSLNAPNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSR 56
D +IYR L+T ++DS L P FV ++ GD++YFFFRE AVE+ GK V+ R
Sbjct: 179 DAVIYRSLGDSPTLRTVKHDSKWLKEPYFVQAVDYGDYIYFFFREIAVEYNTMGKVVFPR 238
Query: 57 VARVCKYDRGGPHRF-RNRWTSFLKSRLNCSVPGDFPFYFDEIQ 99
VA+VCK D GG R +WTSFLK+RLNCSVPGD FYF+ +Q
Sbjct: 239 VAQVCKNDMGGSQRVLEKQWTSFLKARLNCSVPGDSHFYFNILQ 282
>1q47_A Semaphorin 3A; beta propeller, signaling protein; HET: NAG; 2.80A
{Mus musculus} SCOP: b.69.12.1
Length = 495
Score = 105 bits (263), Expect = 2e-28
Identities = 49/112 (43%), Positives = 69/112 (61%), Gaps = 14/112 (12%)
Query: 2 DPIIYR-----EPLQTEQYDSMSLNAPNFVSSL-------TQGDFVYFFFRETAVEFINC 49
D I+R P++TEQ+DS LN P F+S+ + D VYFFFRE A++ +
Sbjct: 173 DFAIFRTLGHHHPIRTEQHDSRWLNDPRFISAHLIPESDNPEDDKVYFFFRENAIDGEHS 232
Query: 50 GKAVYSRVARVCKYDRGGPHRFRNRWTSFLKSRLNCSVPGD--FPFYFDEIQ 99
GKA ++R+ ++CK D GG N+WT+FLK+RL CSVPG +FDE+Q
Sbjct: 233 GKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPNGIDTHFDELQ 284
>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 = 100 bits (248), Expect = 2e-26
Identities = 40/111 (36%), Positives = 58/111 (52%), Gaps = 14/111 (12%)
Query: 2 DPIIYREPLQTE---QYDSMSLNAPNFVSSLT----------QGDFVYFFFRETAVEFIN 48
+PII R + +Y LN P+FV + + D VYFFF E +VE+
Sbjct: 164 EPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIRKSPDSPDGEDDRVYFFFTEVSVEYEF 223
Query: 49 CGKAVYSRVARVCKYDRGGPHRFRNRWTSFLKSRLNCSVPGDFPFYFDEIQ 99
+ + R+ARVCK D+GG + +WTSFLK+RL CS P F+ ++
Sbjct: 224 VFRVLIPRIARVCKGDQGGLRTLQKKWTSFLKARLICSRPDS-GLVFNVLR 273
>3nvq_A Semaphorin-7A; beta-propeller, signaling, signaling protein-protein
binding; HET: NAG NDG; 2.40A {Homo sapiens}
Length = 590
Score = 99.3 bits (246), Expect = 5e-26
Identities = 30/106 (28%), Positives = 49/106 (46%), Gaps = 9/106 (8%)
Query: 2 DPIIYREPLQTEQYDSMS-LNAPNFVSSL------TQGDFVYFFFRETAVEFINCGKAVY 54
P R ++E Y S + + P F+ + D +Y+FFRE +
Sbjct: 156 IPRFRRIRGESELYTSDTVMQNPQFIKATIVHQDQAYDDKIYYFFREDNPDKNPEAPLNV 215
Query: 55 SRVARVCKYDRGGPHRF-RNRWTSFLKSRLNCSVPGDFPFYFDEIQ 99
SRVA++C+ D+GG ++W +FLK+ L CS F+ +Q
Sbjct: 216 SRVAQLCRGDQGGESSLSVSKWNTFLKAMLVCSDAAT-NKNFNRLQ 260
>3nvx_A Protein A39; beta-propeller, viral protein; HET: NAG; 2.00A
{Vaccinia virus} PDB: 3nvn_A*
Length = 383
Score = 91.4 bits (226), Expect = 2e-23
Identities = 25/105 (23%), Positives = 38/105 (36%), Gaps = 11/105 (10%)
Query: 2 DPIIYREPLQTEQYDSMSLNA-----PNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSR 56
+ P + Y + ++ FV D VY F +T
Sbjct: 121 RWRRFDGPCGYDLYTADNVIPKDGLRGAFVDKDGTYDKVYILFTDTIGSK---RIVKIPY 177
Query: 57 VARVCKYDRGGPHRFRN-RWTSFLKSRLNCSVPGDFPFYFDEIQV 100
+A++C D GGP + RW++FLK L C + G Y I
Sbjct: 178 IAQMCLNDEGGPSSLSSHRWSTFLKVELECDIDGR--SYRQIIHS 220
>3ol2_B Plexin-B1; beta-propeller, signalling, extacellular, signaling
protein; HET: NAG BMA; 2.99A {Homo sapiens}
Length = 528
Score = 70.5 bits (171), Expect = 7e-16
Identities = 18/98 (18%), Positives = 34/98 (34%), Gaps = 10/98 (10%)
Query: 2 DPIIYREPLQTEQYDSMSLNAPNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSRVARVC 61
E +S + +FVS+ +G YF F ++ +A + V+RVC
Sbjct: 179 QAAFSYEETAKLAVGRLSEYSHHFVSAFARGASAYFLFLRRDLQAQ--SRAFRAYVSRVC 236
Query: 62 KYDRGGPHRFRNRWTSFLKSRLNCSVPGDFPFYFDEIQ 99
D+ + S+++ L C +
Sbjct: 237 LRDQ--------HYYSYVELPLACEGGRYGLIQAAAVA 266
>4fww_A Macrophage-stimulating protein receptor; beta-propeller,
cysteine-knot, receptor tyrosine kinase, MAC stimulating
protein, N-glycosylation; HET: NAG BMA; 1.85A {Homo
sapiens}
Length = 527
Score = 66.6 bits (161), Expect = 2e-14
Identities = 15/87 (17%), Positives = 31/87 (35%), Gaps = 17/87 (19%)
Query: 21 NAPNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSRVARVCKYDRGGPHRFRNRWTSFLK 80
+ +V S G FVYF + A + A+++R+AR+ + + +
Sbjct: 204 YSIEYVHSFHTGAFVYFLTVQPASVT-DDPSALHTRLARLSATEPE--------LGDYRE 254
Query: 81 SRLNCSVP--------GDFPFYFDEIQ 99
L+C + + +Q
Sbjct: 255 LVLDCRFAPKLVPRGSPEGGQPYPVLQ 281
>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 = 65.8 bits (159), Expect = 3e-14
Identities = 8/75 (10%), Positives = 22/75 (29%), Gaps = 11/75 (14%)
Query: 21 NAPNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSRVARVCKYDRGGPHRFRNRWTSFLK 80
+ +FV + +YF + + + + +AR+ + +
Sbjct: 196 GSLHFVDAFLWNGSIYFPYYP--YNYTSGAATGWPSMARIAQST---------EVLFQGQ 244
Query: 81 SRLNCSVPGDFPFYF 95
+ L+C
Sbjct: 245 ASLDCGHGHPDGRRL 259
>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 = 65.4 bits (158), Expect = 4e-14
Identities = 13/105 (12%), Positives = 32/105 (30%), Gaps = 17/105 (16%)
Query: 1 MDPIIYREPLQTEQYDSMSLNAPNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSRVARV 60
+ + + +V + +F+YF + + ++R+ R
Sbjct: 204 GFMFLTDQSYIDVLPEFRDSYPIKYVHAFESNNFIYFLTVQRETL---DAQTFHTRIIRF 260
Query: 61 CKYDRGGPHRFRNRWTSFLKSRLNCSV------PGDFPFYFDEIQ 99
C + G S+++ L C + F+ +Q
Sbjct: 261 CSINSG--------LHSYMEMPLECILTEKRKKRSTKKEVFNILQ 297
>3al9_A Plexin-A2; beta-propeller, membrane protein, signaling protein;
HET: NAG; 2.10A {Mus musculus} PDB: 3al8_B*
Length = 539
Score = 60.8 bits (146), Expect = 2e-12
Identities = 16/97 (16%), Positives = 32/97 (32%), Gaps = 16/97 (16%)
Query: 8 EPLQTEQYDSMSLNAPNFVSSLTQGDFVYFFFRETAVEFIN-----CGKAVYSRVARVCK 62
+ ++ +S ++ G FVYF + SR+ R+CK
Sbjct: 196 IKIPSDTLALVSHFDIFYIYGFASGGFVYFLTVQPETPDGMAINSAGDLFYTSRIVRLCK 255
Query: 63 YDRGGPHRFRNRWTSFLKSRLNCSVPGDFPFYFDEIQ 99
D ++ S++ C+ G + +Q
Sbjct: 256 DD--------PKFHSYVSLPFGCTRAG---VEYRLLQ 281
>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 = 59.7 bits (143), Expect = 4e-12
Identities = 18/97 (18%), Positives = 35/97 (36%), Gaps = 16/97 (16%)
Query: 8 EPLQTEQYDSMSLNAPNFVSSLTQGDFVYFFFRETAVE----FINCGKAVY-SRVARVCK 62
+ ++ +S ++ G FVYF + + G Y SR+ R+CK
Sbjct: 195 IKIPSDTLALVSHFDIFYIYGFASGGFVYFLTVQPETPDGMAINSAGDLFYTSRIVRLCK 254
Query: 63 YDRGGPHRFRNRWTSFLKSRLNCSVPGDFPFYFDEIQ 99
D ++ S++ C+ G + +Q
Sbjct: 255 DD--------PKFHSYVSLPFGCTRAG---VEYRLLQ 280
>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 = 27.3 bits (60), Expect = 0.90
Identities = 18/111 (16%), Positives = 39/111 (35%), Gaps = 28/111 (25%)
Query: 8 EPLQTEQYDS---MSLNAPNFVSSLTQGDFVYFFFRETAVEFINCGKAVYSRVARVCK-- 62
EP + Q+D + L F + +G+ ++ A + + + + K
Sbjct: 73 EPSKVGQFDQVLNLCLTE--FENCYLEGNDIHAL----AAKLLQENDTTLVKTKELIKNY 126
Query: 63 YD-RGGPHRFRNRWTSFLKSRLNCSVP-------------GDFPFYFDEIQ 99
R R ++ ++ S L +V G+ YF+E++
Sbjct: 127 ITARIMAKRPFDKKSN---SALFRAVGEGNAQLVAIFGGQGNTDDYFEELR 174
>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 = 24.8 bits (53), Expect = 6.8
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 9/44 (20%)
Query: 65 RGGPHRFRNRW--------TSFLKSRLNCSVPGDFPFYFDEIQV 100
R G + + W T+ ++S LN P ++ FD + V
Sbjct: 338 RDGLATW-DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
>1juh_A Quercetin 2,3-dioxygenase; cupin, glycoprotein, beta sandwich,
oxidoreduct; HET: NAG BMA MAN; 1.60A {Aspergillus
japonicus} SCOP: b.82.1.5 PDB: 1gqh_A* 1h1i_A* 1h1m_A*
1gqg_A*
Length = 350
Score = 24.4 bits (52), Expect = 8.3
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 4/35 (11%)
Query: 65 RGGPHRFRNRWTSFLKSRLNCSV-PGDFPFYFDEI 98
R H F+ + + + + PG F F +
Sbjct: 108 RNVTHTFQIQDP---DTEMTGVIVPGGFEDLFYYL 139
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
0.327 0.142 0.454
Gapped
Lambda K H
0.267 0.0413 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,570,383
Number of extensions: 75439
Number of successful extensions: 151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 15
Length of query: 100
Length of database: 6,701,793
Length adjustment: 66
Effective length of query: 34
Effective length of database: 4,859,007
Effective search space: 165206238
Effective search space used: 165206238
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.2 bits)