RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6122
(98 letters)
>2h0b_A Neurexin-1-alpha; B-sandwich, cell adhesion; 2.10A {Bos taurus}
Length = 184
Score = 41.0 bits (96), Expect = 9e-06
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 31 ATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
ATF+G E+ Y + PI SS D I+L F+T GL+LH
Sbjct: 8 ATFKGSEYFCY---DLSQNPIQSSSDEITLSFKTLQRNGLMLHT 48
>3sh4_A LG3 peptide; actin disassambly, integrin alpha12 BETA1, metal
binding Pro; 1.50A {Homo sapiens} PDB: 3sh5_A
Length = 195
Score = 39.1 bits (91), Expect = 5e-05
Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 27 APSE--ATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEA 81
AP + A F FL + + +TI L RT ++GL+L EA
Sbjct: 2 APGQYGAYFHDDGFLAFPGHVFS-RSLPEVPETIELEVRTSTASGLLLWQGVEVGEA 57
>3qcw_A Neurexin-1-alpha; synaptic adhesion molecule, cell adhesion; HET:
NAG; 2.65A {Bos taurus} PDB: 3r05_A* 3poy_A*
Length = 1245
Score = 38.3 bits (88), Expect = 1e-04
Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 23 DEDKAPSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
+ K ATF+G E+ YD ++ PI SS D I+L F+T GL+LH
Sbjct: 226 SQGKEEYIATFKGSEYFCYDLSQ---NPIQSSSDEITLSFKTLQRNGLMLHT 274
Score = 31.7 bits (71), Expect = 0.028
Identities = 7/75 (9%), Positives = 23/75 (30%), Gaps = 5/75 (6%)
Query: 23 DEDKAPSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEAT 82
+ + F + + P + D +++ F T +++ D +
Sbjct: 1051 LCNDPGTTYIFSKGGGQITYKWPPNDRPSTRA-DRLAIGFSTVQKEAVLVRVDSSSGLGD 1109
Query: 83 FRGLE----FLVYEY 93
+ L + ++
Sbjct: 1110 YLELHIHQGKIGVKF 1124
Score = 28.3 bits (62), Expect = 0.37
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 53 SSQDTISLYFRTKHSTGLILHAD 75
+ +S +T+ + GL+L+ D
Sbjct: 19 CCESEMSFQLKTRSARGLVLYFD 41
Score = 28.3 bits (62), Expect = 0.46
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 57 TISLYFRTKHSTGLILHA 74
+ F+T GLIL+
Sbjct: 861 HLFFQFKTTSLDGLILYN 878
Score = 28.3 bits (62), Expect = 0.47
Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 4/52 (7%)
Query: 33 FRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEATFR 84
+ G F+ + + + +SL FR++ + G+++ S T R
Sbjct: 663 YDGSMFMKIQLPVVM----HTEAEDVSLRFRSQRAYGILMATTSRDSADTLR 710
Score = 26.7 bits (58), Expect = 1.6
Identities = 10/26 (38%), Positives = 12/26 (46%)
Query: 57 TISLYFRTKHSTGLILHADKAPSEAT 82
+IS FRT GLIL + P
Sbjct: 445 SISFDFRTTEPNGLILFSHGKPRHQK 470
>3bod_A Neurexin-1-alpha; neurexin1D, LNS6, alternative splicing,
calcium, cell adhesion, EGF-like domain, glycoprotein,
membrane, metal- binding; 1.70A {Mus musculus} PDB:
2vh8_C 2xb6_C* 2wqz_C* 1c4r_A 3bop_A 3mw4_A*
Length = 178
Score = 35.2 bits (81), Expect = 0.001
Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 27 APSEAT---FRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEATF 83
AP +T +G + Y + + D +++ F T +++ D + +
Sbjct: 1 APLGSTYIFSKGGGQITYKWPP--NDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDY 58
Query: 84 RGLE 87
L
Sbjct: 59 LELH 62
>1h30_A GAS6, growth-arrest-specific protein; laminin G-domain protein,
vitamin K-dependent protein, AXL/SKY/MER ligand,
laminin G- like domain; 2.2A {Homo sapiens} SCOP:
b.29.1.4 b.29.1.4 PDB: 2c5d_A*
Length = 422
Score = 35.2 bits (80), Expect = 0.001
Identities = 9/47 (19%), Positives = 19/47 (40%)
Query: 29 SEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHAD 75
++ + G F R+ + + ++ FRT G++L A
Sbjct: 36 VKSLYLGRMFSGTPVIRLRFKRLQPTRLVAEFDFRTFDPEGILLFAG 82
>3pve_A Agrin, AGRN protein; mRNA splicing, structural genomics, PSI-2,
protein structure initiative; 1.40A {Mus musculus}
Length = 189
Score = 33.7 bits (77), Expect = 0.004
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 28 PSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
P A F G +L E + + + + F + +GL+L+
Sbjct: 9 PFLADFNGFSYLELKGLH-TFERDLGEKMALEMVFLARGPSGLLLYN 54
>2r1b_A Neurexin-1-beta, neurexin I-beta; beta-sandwich, cell adhesion,
splicing; 1.72A {Rattus norvegicus} PDB: 3mw2_A*
3b3q_E* 3mw3_A*
Length = 220
Score = 33.6 bits (76), Expect = 0.005
Identities = 5/35 (14%), Positives = 14/35 (40%)
Query: 53 SSQDTISLYFRTKHSTGLILHADKAPSEATFRGLE 87
+ D +++ F T +++ D + + L
Sbjct: 34 TRADRLAIGFSTVQKEAVLVRVDSSSGLGDYLELH 68
>2jd4_A Laminin subunit alpha-1; basement membrane protein, metal binding
protein; 1.9A {Mus musculus}
Length = 383
Score = 33.4 bits (76), Expect = 0.005
Identities = 9/43 (20%), Positives = 15/43 (34%), Gaps = 4/43 (9%)
Query: 32 TFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
LV + + + + L RT S+GLI +
Sbjct: 25 GLSQNSHLVLP----LQQSDVRKRLQVQLSIRTFASSGLIYYV 63
Score = 26.5 bits (58), Expect = 1.3
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 52 ISSQDTISLYFRTKHSTGLILHA 74
+ I+L FRT G++L
Sbjct: 218 VRLDLQITLEFRTTSKNGVLLGI 240
>3v64_A Low-density lipoprotein receptor-related protein; beta propeller,
laminin-G, signaling, protein binding; HET: NAG; 2.85A
{Rattus norvegicus} PDB: 3v65_A
Length = 191
Score = 32.9 bits (75), Expect = 0.007
Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 7/64 (10%)
Query: 31 ATFRGLEFLVYDQTRIGGEPIIS-------SQDTISLYFRTKHSTGLILHADKAPSEATF 83
F G ++ Y I E + L RT+ + GL+L KA A +
Sbjct: 5 LAFDGRTYIEYLNAVIESELTNEIPAEKALQSNHFELSLRTEATQGLVLWIGKAAERADY 64
Query: 84 RGLE 87
L
Sbjct: 65 MALA 68
>2r16_A Neurexin-1-alpha; beta-sandwich, cell adhesion, splicing; 1.04A
{Bos taurus}
Length = 182
Score = 32.5 bits (74), Expect = 0.008
Identities = 7/46 (15%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 29 SEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
+ ++ G F+ + + + +SL FR++ + G+++
Sbjct: 6 TVLSYDGSMFMKIQLP----VVMHTEAEDVSLRFRSQRAYGILMAT 47
>2r1d_A Neurexin-1-beta, neurexin I-beta; beta-sandwich, cell adhesion,
splicing; 2.60A {Rattus norvegicus} SCOP: b.29.1.4 PDB:
3biw_E*
Length = 226
Score = 32.7 bits (74), Expect = 0.009
Identities = 7/56 (12%), Positives = 19/56 (33%), Gaps = 2/56 (3%)
Query: 33 FRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEATFRGLEF 88
+G + Y + + D +++ F T +++ D + + L
Sbjct: 44 SKGGGQITYKWPP--NDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDYLELHI 97
>3asi_A Neurexin-1-alpha; beta-sandwich, cell adhesion, synapse maturation,
neuroligin glycosylation, membrane; HET: NAG; 2.30A {Bos
taurus}
Length = 410
Score = 32.7 bits (74), Expect = 0.009
Identities = 8/74 (10%), Positives = 24/74 (32%), Gaps = 6/74 (8%)
Query: 24 EDKAPSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEATF 83
D + +G + Y + + D +++ F T +++ D + +
Sbjct: 221 NDPGTTYIFSKGGGQITYKW--PPNDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDY 278
Query: 84 RGLE----FLVYEY 93
L + ++
Sbjct: 279 LELHIHQGKIGVKF 292
Score = 28.8 bits (64), Expect = 0.25
Identities = 8/45 (17%), Positives = 16/45 (35%), Gaps = 7/45 (15%)
Query: 31 ATFRGLE-FLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
TF+ ++ + + + F+T GLIL+
Sbjct: 8 VTFKTKSSYVALATLQA------YTSMHLFFQFKTTSLDGLILYN 46
>1dyk_A Laminin alpha 2 chain; metal binding protein; 2.0A {Mus musculus}
SCOP: b.29.1.4 b.29.1.4 PDB: 1okq_A 1qu0_A
Length = 394
Score = 31.9 bits (72), Expect = 0.022
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 52 ISSQDTISLYFRTKHSTGLILHAD 75
+ ++ TI L RT+ +GL+ +
Sbjct: 55 VKNRLTIELEVRTEAESGLLFYMA 78
Score = 26.5 bits (58), Expect = 1.4
Identities = 13/66 (19%), Positives = 18/66 (27%), Gaps = 5/66 (7%)
Query: 9 IPRSTPLILTTNNGDEDKAPSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHST 68
+ P A S F G F G + + FRT T
Sbjct: 192 VDLDQPTSSFHVGTCFANAESGTYFDGTGFAKAVGGFKVGLDL-----LVEFEFRTTRPT 246
Query: 69 GLILHA 74
G++L
Sbjct: 247 GVLLGV 252
>2wjs_A Laminin subunit alpha-2; integrin, secreted, coiled coil,
glycoprotein, laminin EGF-like domain, extracellular
matrix, laminin G-like domain; HET: NAG; 2.80A {Mus
musculus}
Length = 608
Score = 31.6 bits (71), Expect = 0.023
Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 31 ATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHA 74
F G + + + + T+ FRT S+ L+++
Sbjct: 206 IQFDGEGYALVSRPI----RWYPNISTVMFKFRTFSSSALLMYL 245
Score = 31.2 bits (70), Expect = 0.040
Identities = 4/22 (18%), Positives = 11/22 (50%)
Query: 53 SSQDTISLYFRTKHSTGLILHA 74
S + I ++ +T + L+ +
Sbjct: 30 GSYNNIVVHVKTAVADNLLFYL 51
Score = 26.2 bits (57), Expect = 1.9
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 52 ISSQDTISLYFRTKHSTGLILHADKAPSE 80
I I+L F T++ +G+IL
Sbjct: 405 IDVGTEINLSFSTRNESGIILLGSGGGQA 433
>1pz7_A Agrin; structural protein; 1.42A {Gallus gallus} SCOP: b.29.1.4
PDB: 1pz8_A 1pz9_A 1q56_A
Length = 204
Score = 29.8 bits (67), Expect = 0.10
Identities = 11/67 (16%), Positives = 21/67 (31%), Gaps = 10/67 (14%)
Query: 31 ATFRGLEFLVYDQTRIGGEPIIS----------SQDTISLYFRTKHSTGLILHADKAPSE 80
F G ++ Y + + L +T+ + GLIL + K
Sbjct: 15 IAFDGRTYMEYHNAVTKSPDALDYPAEPSEKALQSNHFELSIKTEATQGLILWSGKGLER 74
Query: 81 ATFRGLE 87
+ + L
Sbjct: 75 SDYIALA 81
>1d2s_A SHBG, sex hormone-binding globulin; steroid transport, laminin
G-like domain, jellyroll, androgen binding protein
(ABP); HET: DHT; 1.55A {Homo sapiens} SCOP: b.29.1.4
PDB: 1kdk_A* 1kdm_A*
Length = 170
Score = 29.5 bits (66), Expect = 0.11
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 57 TISLYFRTKHSTGLILHAD 75
+ S RT G+I + D
Sbjct: 29 SSSFEVRTWDPEGVIFYGD 47
>1f5f_A SHBG, sex hormone-binding globulin; jellyroll, signaling protein;
HET: DHT; 1.70A {Homo sapiens} SCOP: b.29.1.4 PDB:
1lhw_A* 1lho_A* 1lhn_A* 1lhv_A* 1lhu_A*
Length = 205
Score = 29.1 bits (65), Expect = 0.18
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 57 TISLYFRTKHSTGLILHAD 75
+ S RT G+I + D
Sbjct: 41 SSSFEVRTWDPEGVIFYGD 59
>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 = 28.4 bits (62), Expect = 0.28
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 7/27 (25%)
Query: 65 KHSTGLILHA-DKAPS---EATFRGLE 87
K L L+A D AP+ +AT +E
Sbjct: 24 KLQASLKLYADDSAPALAIKAT---ME 47
>2gb4_A Thiopurine S-methyltransferase; 18204406, thiopurine
methyltransferase, structural genomics, PSI, protein
structure initiative; HET: SAH; 1.25A {Mus musculus}
PDB: 3bgi_A* 3bgd_A* 2bzg_A* 2h11_A*
Length = 252
Score = 26.4 bits (57), Expect = 1.9
Identities = 15/63 (23%), Positives = 23/63 (36%)
Query: 36 LEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHADKAPSEATFRGLEFLVYEYCL 95
+ L YD T+ G P + F TK S + D GL++L + L
Sbjct: 189 VAVLSYDPTKHAGPPFYVPSAELKRLFGTKCSMQCLEEVDALEERHKAWGLDYLFEKLYL 248
Query: 96 IVH 98
+
Sbjct: 249 LTE 251
>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 = 25.0 bits (54), Expect = 4.9
Identities = 22/116 (18%), Positives = 34/116 (29%), Gaps = 31/116 (26%)
Query: 2 ATHQVYVIPRSTPLILTTNNGDEDKAPS------EATFRGLEFLVYDQTRIGGEPIISSQ 55
++ Y P IL + + + PS T ++ V ++T Q
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV-NKTNSHLPA--GKQ 365
Query: 56 DTISLY-----F------RTKHSTGLILHADKAP-----SEATFR------GLEFL 89
ISL ++ + L L KAP S F FL
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
>3g3e_A D-amino-acid oxidase; FAD, flavoprotein, oxidoreductase, PER; HET:
FAD G3E; 2.20A {Homo sapiens} PDB: 3cuk_A* 2e48_A*
2e49_A* 2e4a_A* 2e82_A* 2du8_A* 1ve9_A* 1dao_A* 1ddo_A*
1kif_A* 1an9_A* 1evi_A*
Length = 351
Score = 25.0 bits (54), Expect = 5.6
Identities = 5/33 (15%), Positives = 12/33 (36%), Gaps = 2/33 (6%)
Query: 6 VYVIPRSTPLIL--TTNNGDEDKAPSEATFRGL 36
Y+IP + + L G+ + + +
Sbjct: 227 PYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTI 259
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
0.320 0.137 0.400
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,358,115
Number of extensions: 65765
Number of successful extensions: 160
Number of sequences better than 10.0: 1
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 33
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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: 51 (23.4 bits)